Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 60 of 185
Found at i:17383838 original size:4 final size:4
Alignment explanation
Indices: 17383829--17383891 Score: 72
Period size: 4 Copynumber: 14.5 Consensus size: 4
17383819 AAAAATACAT
*
17383829 TTTC TTTC TTTC TTTTC TTCTCC TTTC TTTC TTTA TTTC TTCTCC TTTC
1 TTTC TTTC TTTC -TTTC TT-T-C TTTC TTTC TTTC TTTC TT-T-C TTTC
17383878 TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TT
17383892 CTCCTCTCTT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
4 38 0.73
5 8 0.15
6 6 0.12
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTC
Found at i:17383870 original size:22 final size:22
Alignment explanation
Indices: 17383829--17383901 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
17383819 AAAAATACAT
*
17383829 TTTCTTTCTTTCTTTTCTTCTCC
1 TTTCTTTCTTT-ATTTCTTCTCC
17383852 TTTCTTTCTTTATTTCTTCTCC
1 TTTCTTTCTTTATTTCTTCTCC
*
17383874 TTTCTTTCTTTCTTTCTTCTCC
1 TTTCTTTCTTTATTTCTTCTCC
*
17383896 TCTCTT
1 TTTCTT
17383902 CTTCCTTGTG
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
22 36 0.77
23 11 0.23
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTCTTTCTTTATTTCTTCTCC
Found at i:17384056 original size:27 final size:27
Alignment explanation
Indices: 17383979--17384056 Score: 129
Period size: 27 Copynumber: 2.9 Consensus size: 27
17383969 AAAATTAATG
* *
17383979 CACTAGTGTCGCCTATCAGATAGAGGT
1 CACTAGTGCCGCCTATCAGATAGGGGT
*
17384006 CACCAGTGCCGCCTATCAGATAGGGGT
1 CACTAGTGCCGCCTATCAGATAGGGGT
17384033 CACTAGTGCCGCCTATCAGATAGG
1 CACTAGTGCCGCCTATCAGATAGG
17384057 CACCACACCC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (27 bp):
CACTAGTGCCGCCTATCAGATAGGGGT
Found at i:17384776 original size:59 final size:59
Alignment explanation
Indices: 17384704--17384822 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
17384694 ACACGTTAAC
17384704 ATAACACTGGTCTATAAATATAAATCACAATAGGGAATTACTCTTACCATGATCTTATG
1 ATAACACTGGTCTATAAATATAAATCACAATAGGGAATTACTCTTACCATGATCTTATG
17384763 ATAACACTGGTCTATAAATATAAATCACAATAGGGAATTACTCTTACCATGATCTTATG
1 ATAACACTGGTCTATAAATATAAATCACAATAGGGAATTACTCTTACCATGATCTTATG
17384822 A
1 A
17384823 AGTTATGAAG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (59 bp):
ATAACACTGGTCTATAAATATAAATCACAATAGGGAATTACTCTTACCATGATCTTATG
Found at i:17389222 original size:34 final size:34
Alignment explanation
Indices: 17389179--17389248 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
17389169 TTGAGACTTG
* *
17389179 AAAATTTTGAAGGTGAAGACATTTTTTTAACCTC
1 AAAATTTTGAAGATGAAGACATTTTTTGAACCTC
* *
17389213 AAAATTTTGAAGATGAGGACCTTTTTTGAACCTC
1 AAAATTTTGAAGATGAAGACATTTTTTGAACCTC
17389247 AA
1 AA
17389249 CTAATTGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (34 bp):
AAAATTTTGAAGATGAAGACATTTTTTGAACCTC
Found at i:17391457 original size:21 final size:21
Alignment explanation
Indices: 17391431--17391472 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17391421 CAATGTGGCA
* * *
17391431 AGTTAATTGGCCACGTCAGCT
1 AGTTAACTAGCCACATCAGCT
17391452 AGTTAACTAGCCACATCAGCT
1 AGTTAACTAGCCACATCAGCT
17391473 GTCCCGTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (21 bp):
AGTTAACTAGCCACATCAGCT
Found at i:17397787 original size:19 final size:19
Alignment explanation
Indices: 17397754--17397792 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
17397744 GTAAAATTTA
*
17397754 ATTTTAATATATAAACTAT
1 ATTTTAATATATAAAATAT
17397773 ATTTTAA-ATATTAAAATAT
1 ATTTTAATATA-TAAAATAT
17397792 A
1 A
17397793 ACCTTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTTTAATATATAAAATAT
Found at i:17402376 original size:19 final size:19
Alignment explanation
Indices: 17402352--17402394 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
17402342 AGTTGGGGAA
*
17402352 AGTGGCGAGCTAGGAGCGG
1 AGTGGCGAGCGAGGAGCGG
17402371 AGTGGCGAGCGAGGAGCGG
1 AGTGGCGAGCGAGGAGCGG
17402390 AGTGG
1 AGTGG
17402395 TGCAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.21, C:0.14, G:0.56, T:0.09
Consensus pattern (19 bp):
AGTGGCGAGCGAGGAGCGG
Found at i:17407454 original size:34 final size:34
Alignment explanation
Indices: 17407414--17407665 Score: 128
Period size: 34 Copynumber: 7.4 Consensus size: 34
17407404 TAAATAAAAG
* *
17407414 CGTGATCTTAAATCACCGTGCTATGTAAATTAGT
1 CGTGATCTTAAATCAGCGTGCTATGTAAATTAGC
* * * * *
17407448 TGTGATCTTAAAACAACATG-T-TGTAAGA-TAGGAG
1 CGTGATCTTAAATCAGCGTGCTATGTAA-ATTA-G-C
* * ** *
17407482 CGTGATCTTAAATCAGCATCCTATGTAGGTTAAC
1 CGTGATCTTAAATCAGCGTGCTATGTAAATTAGC
* *
17407516 CGTGATCTTAAATCAACG-GAT-TGTAAGATATGAG-
1 CGTGATCTTAAATCAGCGTGCTATGTAA-AT-T-AGC
* ** *
17407550 TGTGATCTTAAATTGGCGTGCTATGTAGATTAGC
1 CGTGATCTTAAATCAGCGTGCTATGTAAATTAGC
* *
17407584 CGTGATCTTAAATCAGCGAT-CTA--TAAAATAGG
1 CGTGATCTTAAATCAGCG-TGCTATGTAAATTAGC
* *
17407616 GGTGAAATCTTAAATC-GACGTGCTATGTAAATTAGT
1 CGTG--ATCTTAAATCAG-CGTGCTATGTAAATTAGC
**
17407652 TATGATCTTAAATC
1 CGTGATCTTAAATC
17407666 GGTGGGCTAT
Statistics
Matches: 162, Mismatches: 37, Indels: 38
0.68 0.16 0.16
Matches are distributed among these distances:
32 20 0.12
33 9 0.06
34 107 0.66
35 7 0.04
36 19 0.12
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.33
Consensus pattern (34 bp):
CGTGATCTTAAATCAGCGTGCTATGTAAATTAGC
Found at i:17407494 original size:68 final size:68
Alignment explanation
Indices: 17407412--17408077 Score: 302
Period size: 68 Copynumber: 9.8 Consensus size: 68
17407402 TATAAATAAA
* ** *
17407412 AGCGTGATCTTAAATCACCGTGCTATGTAAATTAGTTGTGATCTTAAAACAACATGTTGTAAGAT
1 AGCGTGATCTTAAATCAGCGTGCTATGTAAATTAGCCGTGATCTTAAATCAACATGTTGTAAGAT
17407477 AGG
66 AGG
* * ** * *
17407480 AGCGTGATCTTAAATCAGCATCCTATGTAGGTTAACCGTGATCTTAAATCAAC-GGATTGTAAGA
1 AGCGTGATCTTAAATCAGCGTGCTATGTAAATTAGCCGTGATCTTAAATCAACATG-TTGTAAGA
*
17407544 TATG
65 TAGG
* ** * * * * *
17407548 AGTGTGATCTTAAATTGGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAGCGAT-CTATAAAA
1 AGCGTGATCTTAAATCAGCGTGCTATGTAAATTAGCCGTGATCTTAAATCAAC-ATGTTGTAAGA
17407612 TAGG
65 TAGG
*** ***** * *
17407616 -G-GTGAAATCTTAAATC-GACGTGCTATGTAAATTAGTTATGATCTTAAATCGGTGGGCTATAA
1 AGCGTG--ATCTTAAATCAG-CGTGCTATGTAAATTAGCCGTGATCTTAAATCAACATGTTGTAA
*
17407678 GATAAG
63 GATAGG
* * ** * ** * * * * * *
17407684 AGTGCGATCTTAAATTGGCGTGCTATATAGGTTAACCATGATATTAAATC-A-GTGAACTGTAAT
1 AGCGTGATCTTAAATCAGCGTGCTATGTAAATTAGCCGTGATCTTAAATCAACATG--TTGTAAG
17407747 ATAGG
64 ATAGG
* * * * * *
17407752 AGCGAT-ATCTTAAATCAGCGTGCTATGTAAATTAGCTGTGATCTTCAATCAGCA-GACTATAAA
1 AGCG-TGATCTTAAATCAGCGTGCTATGTAAATTAGCCGTGATCTTAAATCAACATG-TTGTAAG
*
17407815 ATA-A
64 ATAGG
* * * * *
17407819 AG-GTGCGATCTTAAAT-TGATGTGCTATAG-AAATTAGTCGCGATCTTAAATC-A-GTGGATTG
1 AGCGT--GATCTTAAATCAG-CGTGCTAT-GTAAATTAGCCGTGATCTTAAATCAACAT-G-TTG
17407879 TAAGATAGG
60 TAAGATAGG
* * ** ** ** * *
17407888 AGCGCGATCTTAAATCAGTGTGCTATGTAGGTTAGTTGTGATCTTAAATCAACGA-ACTATAAAA
1 AGCGTGATCTTAAATCAGCGTGCTATGTAAATTAGCCGTGATCTTAAATCAAC-ATGTTGTAAGA
17407952 TAGG
65 TAGG
* ** * ** * ** * * ** *
17407956 GGCGCAATATTAAATTGGTGTGCTATGTAAATTAGTTGTGATGTTAAATTAGTAGGTTGTAAGAT
1 AGCGTGATCTTAAATCAGCGTGCTATGTAAATTAGCCGTGATCTTAAATCAACATGTTGTAAGAT
17408021 AGG
66 AGG
* * ** * * *
17408024 AGCGTGATCTTAAATCGGCATGCTATGTAGGTAAGTCGTGATATTAAATCAACA
1 AGCGTGATCTTAAATCAGCGTGCTATGTAAATTAGCCGTGATCTTAAATCAACA
17408078 AACTATAAAA
Statistics
Matches: 449, Mismatches: 119, Indels: 60
0.71 0.19 0.10
Matches are distributed among these distances:
65 1 0.00
66 6 0.01
67 8 0.02
68 423 0.94
69 8 0.02
70 3 0.01
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (68 bp):
AGCGTGATCTTAAATCAGCGTGCTATGTAAATTAGCCGTGATCTTAAATCAACATGTTGTAAGAT
AGG
Found at i:17407615 original size:136 final size:134
Alignment explanation
Indices: 17407430--17408106 Score: 567
Period size: 136 Copynumber: 5.0 Consensus size: 134
17407420 CTTAAATCAC
* * *
17407430 CGTGCTATGTAAATTAGTTGTGATCTTAAAACAAC-ATGTTGTAAGATAGGAGCGTGATCTTAAA
1 CGTGCTATGTAAATTAGTCGTGATCTTAAATCAGCGA--TTGTAAGATAGGAGCGTGATCTTAAA
* * *** * * * *
17407494 TCAGCATCCTATGTAGGTTAACCGTGATCTTAAATCAACGGATTGTAAGATATGAGTGTGATCTT
64 TCAGCGTGCTATGTAGGTTAGTTGTGATCTTAAATCAACGGACTATAAAATA-GAGTGCGATCTT
17407559 AAATTGG
128 AAATTGG
* * * *
17407566 CGTGCTATGTAGATTAGCCGTGATCTTAAATCAGCGATCTATAAAATAGG-G-GTGAAATCTTAA
1 CGTGCTATGTAAATTAGTCGTGATCTTAAATCAGCGAT-TGTAAGATAGGAGCGTG--ATCTTAA
** * *** * *
17407629 ATC-GACGTGCTATGTAAATTAGTTATGATCTTAAATCGGTGGGCTATAAGATAAGAGTGCGATC
63 ATCAG-CGTGCTATGTAGGTTAGTTGTGATCTTAAATCAACGGACTATAAAAT-AGAGTGCGATC
17407693 TTAAATTGG
126 TTAAATTGG
* ** ** * * * * *
17407702 CGTGCTATATAGGTTAACCATGATATTAAATCAGTGAACTGTAATATAGGAGCGAT-ATCTTAAA
1 CGTGCTATGTAAATTAGTCGTGATCTTAAATCAGCG-ATTGTAAGATAGGAGCG-TGATCTTAAA
** * * * * *
17407766 TCAGCGTGCTATGTAAATTAGCTGTGATCTTCAATCAGCAGACTATAAAATAAAGGTGCGATCTT
64 TCAGCGTGCTATGTAGGTTAGTTGTGATCTTAAATCAACGGACTATAAAATAGA-GTGCGATCTT
*
17407831 AAATTGA
128 AAATTGG
* * * *
17407838 TGTGCTATAG-AAATTAGTCGCGATCTTAAATCAGTGGATTGTAAGATAGGAGCGCGATCTTAAA
1 CGTGCTAT-GTAAATTAGTCGTGATCTTAAATCAG-CGATTGTAAGATAGGAGCGTGATCTTAAA
* * * *
17407902 TCAGTGTGCTATGTAGGTTAGTTGTGATCTTAAATCAACGAACTATAAAATAG-GGGCGCAATAT
64 TCAGCGTGCTATGTAGGTTAGTTGTGATCTTAAATCAACGGACTATAAAATAGAGTGCG--ATCT
17407966 TAAATTGG
127 TAAATTGG
* * * * * *
17407974 TGTGCTATGTAAATTAGTTGTGATGTTAAATTAGTAGGTTGTAAGATAGGAGCGTGATCTTAAAT
1 CGTGCTATGTAAATTAGTCGTGATCTTAAATCAG-CGATTGTAAGATAGGAGCGTGATCTTAAAT
* * * * * ** * *
17408039 CGGCATGCTATGTAGGTAAGTCGTGATATTAAATCAACAAACTATAAAATAAGGGTGTGATCTTA
65 CAGCGTGCTATGTAGGTTAGTTGTGATCTTAAATCAACGGACTATAAAAT-AGAGTGCGATCTTA
17408104 AAT
129 AAT
17408107 CGCTAACTCT
Statistics
Matches: 438, Mismatches: 83, Indels: 40
0.78 0.15 0.07
Matches are distributed among these distances:
134 7 0.02
135 6 0.01
136 412 0.94
137 8 0.02
138 4 0.01
139 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (134 bp):
CGTGCTATGTAAATTAGTCGTGATCTTAAATCAGCGATTGTAAGATAGGAGCGTGATCTTAAATC
AGCGTGCTATGTAGGTTAGTTGTGATCTTAAATCAACGGACTATAAAATAGAGTGCGATCTTAAA
TTGG
Found at i:17407775 original size:204 final size:204
Alignment explanation
Indices: 17407418--17408004 Score: 588
Period size: 204 Copynumber: 2.9 Consensus size: 204
17407408 TAAAAGCGTG
* ****
17407418 ATCTTAAATC-ACCGTGCTATGTAAATTAGTTGTGATCTTAAAACAACATGTTGTAAGATAGGAG
1 ATCTTAAATCGA-CGTGCTATGTAAATTAGTTGTGATCTTAAATCAGTGGGTTGTAAGATAGGAG
* * * * * * * *
17407482 CGTGATCTTAAATCAGCATCCTATGTAGGTTAACCGTGATCTTAAATCAACGGATTGTAAGATAT
65 CGCGATCTTAAATCAGCGTGCTATGTAGGTTAACCATGATATTAAATCAACGAACTGTAAGATAG
* ** *
17407547 GAGTGTGATCTTAAATTGGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAGC-GATCTATAAA
130 GAGCGTGATCTTAAATCAGCGTGCTATGTAAATTAGCCGTGATCTTAAATCAGCAGA-CTATAAA
**
17407611 ATAGGGGTGAA
194 ATAAAGGTGAA
* * * * * *
17407622 ATCTTAAATCGACGTGCTATGTAAATTAGTTATGATCTTAAATCGGTGGGCTATAAGATAAGAGT
1 ATCTTAAATCGACGTGCTATGTAAATTAGTTGTGATCTTAAATCAGTGGGTTGTAAGATAGGAGC
** * ** *
17407687 GCGATCTTAAATTGGCGTGCTATATAGGTTAACCATGATATTAAATCAGTGAACTGTAATATAGG
66 GCGATCTTAAATCAGCGTGCTATGTAGGTTAACCATGATATTAAATCAACGAACTGTAAGATAGG
* *
17407752 AGCGAT-ATCTTAAATCAGCGTGCTATGTAAATTAGCTGTGATCTTCAATCAGCAGACTATAAAA
131 AGCG-TGATCTTAAATCAGCGTGCTATGTAAATTAGCCGTGATCTTAAATCAGCAGACTATAAAA
**
17407816 TAAAGGTGCG
195 TAAAGGTGAA
* * * * *
17407826 ATCTTAAATTGATGTGCTATAG-AAATTAGTCGCGATCTTAAATCAGTGGATTGTAAGATAGGAG
1 ATCTTAAATCGACGTGCTAT-GTAAATTAGTTGTGATCTTAAATCAGTGGGTTGTAAGATAGGAG
* **** * * *
17407890 CGCGATCTTAAATCAGTGTGCTATGTAGGTTAGTTGTGATCTTAAATCAACGAACTATAAAATAG
65 CGCGATCTTAAATCAGCGTGCTATGTAGGTTAACCATGATATTAAATCAACGAACTGTAAGATAG
* ** * ** * ** *
17407955 GGGCGCAATATTAAATTGGTGTGCTATGTAAATTAGTTGTGATGTTAAAT
130 GAGCGTGATCTTAAATCAGCGTGCTATGTAAATTAGCCGTGATCTTAAAT
17408005 TAGTAGGTTG
Statistics
Matches: 310, Mismatches: 68, Indels: 10
0.80 0.18 0.03
Matches are distributed among these distances:
204 305 0.98
205 5 0.02
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.32
Consensus pattern (204 bp):
ATCTTAAATCGACGTGCTATGTAAATTAGTTGTGATCTTAAATCAGTGGGTTGTAAGATAGGAGC
GCGATCTTAAATCAGCGTGCTATGTAGGTTAACCATGATATTAAATCAACGAACTGTAAGATAGG
AGCGTGATCTTAAATCAGCGTGCTATGTAAATTAGCCGTGATCTTAAATCAGCAGACTATAAAAT
AAAGGTGAA
Found at i:17410368 original size:28 final size:28
Alignment explanation
Indices: 17410337--17410416 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
17410327 AGACTTAATC
17410337 ACTTTAATATTAAATTAAAATAATATCA
1 ACTTTAATATTAAATTAAAATAATATCA
* * *
17410365 ACTTAAATATTAAATTAAATTTAATATTA
1 ACTTTAATATTAAATTAAA-ATAATATCA
*
17410394 A--TT-ATATTAAATTAATATAATAT
1 ACTTTAATATTAAATTAAAATAATAT
17410417 TTATCTATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
25 6 0.13
26 12 0.27
27 1 0.02
28 18 0.40
29 8 0.18
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (28 bp):
ACTTTAATATTAAATTAAAATAATATCA
Found at i:17410402 original size:21 final size:20
Alignment explanation
Indices: 17410373--17410411 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
17410363 CAACTTAAAT
17410373 ATTAAATTAAATTTAATATTA
1 ATTAAATTAAA-TTAATATTA
*
17410394 ATTATATTAAATTAATAT
1 ATTAAATTAAATTAATAT
17410412 AATATTTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTAAATTAAATTAATATTA
Found at i:17411851 original size:16 final size:17
Alignment explanation
Indices: 17411830--17411873 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
17411820 TTGGGTCCAG
17411830 TCCAATGTATCA-TTCT
1 TCCAATGTATCAGTTCT
17411846 TCCAATG-AGT-AGTTCT
1 TCCAATGTA-TCAGTTCT
17411862 TCCAATGTATCA
1 TCCAATGTATCA
17411874 ACATGAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
15 2 0.08
16 20 0.83
17 2 0.08
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (17 bp):
TCCAATGTATCAGTTCT
Found at i:17424291 original size:15 final size:14
Alignment explanation
Indices: 17424262--17424324 Score: 54
Period size: 15 Copynumber: 4.2 Consensus size: 14
17424252 TTTCTTCCAA
17424262 ATTATTATTCATTC
1 ATTATTATTCATTC
*
17424276 ATTATTCATTCGTTC
1 ATTATT-ATTCATTC
* * *
17424291 ATTATCATATGATAC
1 ATTATTAT-TCATTC
17424306 AAATTATTATTCATTC
1 --ATTATTATTCATTC
17424322 ATT
1 ATT
17424325 CATAATCATA
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
14 11 0.30
15 15 0.41
16 4 0.11
17 7 0.19
ACGTcount: A:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (14 bp):
ATTATTATTCATTC
Found at i:17424319 original size:35 final size:35
Alignment explanation
Indices: 17424276--17424354 Score: 131
Period size: 35 Copynumber: 2.3 Consensus size: 35
17424266 TTATTCATTC
* * *
17424276 ATTATTCATTCGTTCATTATCATATGATACAAATT
1 ATTATTCATTCATTCATAATCATATGATACAAATA
17424311 ATTATTCATTCATTCATAATCATATGATACAAATA
1 ATTATTCATTCATTCATAATCATATGATACAAATA
17424346 ATTATTCAT
1 ATTATTCAT
17424355 GAATTTATAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.38, C:0.14, G:0.04, T:0.44
Consensus pattern (35 bp):
ATTATTCATTCATTCATAATCATATGATACAAATA
Found at i:17425968 original size:7 final size:7
Alignment explanation
Indices: 17425956--17426016 Score: 99
Period size: 7 Copynumber: 9.0 Consensus size: 7
17425946 TCTAAGTCAA
17425956 AAAAATG
1 AAAAATG
17425963 AAAAATG
1 AAAAATG
*
17425970 -AGAATG
1 AAAAATG
17425976 AAAAATG
1 AAAAATG
17425983 AAAAATG
1 AAAAATG
17425990 -AAAATG
1 AAAAATG
17425996 AAAAATG
1 AAAAATG
17426003 AAAAATG
1 AAAAATG
17426010 AAAAATG
1 AAAAATG
17426017 GAGAGGCTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
6 11 0.22
7 39 0.78
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:17425977 original size:13 final size:14
Alignment explanation
Indices: 17425956--17426016 Score: 99
Period size: 13 Copynumber: 4.5 Consensus size: 14
17425946 TCTAAGTCAA
17425956 AAAAATGAAAAATG
1 AAAAATGAAAAATG
*
17425970 -AGAATGAAAAATG
1 AAAAATGAAAAATG
17425983 AAAAATG-AAAATG
1 AAAAATGAAAAATG
17425996 AAAAATGAAAAATG
1 AAAAATGAAAAATG
17426010 AAAAATG
1 AAAAATG
17426017 GAGAGGCTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
13 25 0.58
14 18 0.42
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.15
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:17425981 original size:20 final size:20
Alignment explanation
Indices: 17425956--17426013 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
17425946 TCTAAGTCAA
*
17425956 AAAAATGAAAAATGAGAATG
1 AAAAATGAAAAATGAAAATG
17425976 AAAAATGAAAAATGAAAATG
1 AAAAATGAAAAATGAAAATG
17425996 AAAAATGAAAAATGAAAA
1 AAAAATGAAAAATGAAAA
17426014 ATGGAGAGGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.14
Consensus pattern (20 bp):
AAAAATGAAAAATGAAAATG
Found at i:17425986 original size:27 final size:27
Alignment explanation
Indices: 17425956--17426016 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
17425946 TCTAAGTCAA
*
17425956 AAAAATGAAAAATG-AGAATGAAAAATG
1 AAAAATG-AAAATGAAAAATGAAAAATG
17425983 AAAAATGAAAATGAAAAATGAAAAATG
1 AAAAATGAAAATGAAAAATGAAAAATG
17426010 AAAAATG
1 AAAAATG
17426017 GAGAGGCTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.15
Consensus pattern (27 bp):
AAAAATGAAAATGAAAAATGAAAAATG
Found at i:17427664 original size:43 final size:43
Alignment explanation
Indices: 17427616--17427747 Score: 108
Period size: 43 Copynumber: 3.1 Consensus size: 43
17427606 GATAGCAGAT
*
17427616 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAGC
* * * * * * * * * * *
17427659 CTTGCC-TCCAT-CGGTT-GCAGTGGAGCTGGTTAAAGATAGCAGT
1 CTTGCCTTCC-TGC-ATTAACAGCGAAGCAGATCAAAAACA-AAGC
17427702 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAGC
1 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAGC
17427745 CTT
1 CTT
17427748 TCCACCATCG
Statistics
Matches: 60, Mismatches: 23, Indels: 12
0.63 0.24 0.13
Matches are distributed among these distances:
42 17 0.28
43 25 0.42
44 18 0.30
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (43 bp):
CTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAGC
Found at i:17427845 original size:347 final size:347
Alignment explanation
Indices: 17427208--17428052 Score: 1404
Period size: 347 Copynumber: 2.4 Consensus size: 347
17427198 AGATCAGTGA
* *
17427208 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGTTAAAGATAGCAGATCTTTC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* * *
17427273 CTTCCCGCATTGACAACGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCT
66 CTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCT
* * *
17427338 AGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCAAAGCAAATCGAAAATAAAGCCTTGC
131 GGTTAAAGATAGCAG-TCTTGCCTTCCTGCATTAACAGCAAAGCAAATCAAAAACAAAGCCTTGC
* * *
17427403 CTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCCGCATTGACAGCGAAG
195 CACCATCGGTTGCAATAGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCCGCATTGACAGCGAAG
*
17427468 CAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAACTGGTTAAAGATAGTAGATCTTG
260 CAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAACTGGTTAAAGATAGCAGATCTTG
17427533 CCTTCCTGCATTAACAGA-GAAGC
325 CCTTCCTGCATTAACA-ACGAAGC
* *
17427556 AGATCGAAAACAAAACATTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
17427621 CTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCT
66 CTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCT
* * *
17427686 GGTTAAAGATAGCAGTCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAGCCTTTCC
131 GGTTAAAGATAGCAGTCTTGCCTTCCTGCATTAACAGCAAAGCAAATCAAAAACAAAGCCTTGCC
**
17427751 ACCATCGGTTGCAATAGAGCTGGTTAAAGATAGCAGATCTTGCCTTCTTGCATTGACAGCGAAGC
196 ACCATCGGTTGCAATAGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCCGCATTGACAGCGAAGC
* *
17427816 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCATTGGAGCTGGTTAAAGATAGCAGATCTTGC
261 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAACTGGTTAAAGATAGCAGATCTTGC
*
17427881 CTTTCTGCATTAACAACGAAGC
326 CTTCCTGCATTAACAACGAAGC
*
17427903 GGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
17427968 CTTCTTGCATTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCAGTTGTAGTGGAGCT
66 CTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCT
*
17428033 GGTTAAAGATAACAGGTCTT
131 GGTTAAAGATAGCA-GTCTT
17428053 ATCTCCATGA
Statistics
Matches: 463, Mismatches: 32, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
346 1 0.00
347 322 0.70
348 140 0.30
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (347 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCT
GGTTAAAGATAGCAGTCTTGCCTTCCTGCATTAACAGCAAAGCAAATCAAAAACAAAGCCTTGCC
ACCATCGGTTGCAATAGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCCGCATTGACAGCGAAGC
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAACTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCATTAACAACGAAGC
Found at i:17428080 original size:87 final size:87
Alignment explanation
Indices: 17427208--17428052 Score: 1368
Period size: 87 Copynumber: 9.7 Consensus size: 87
17427198 AGATCAGTGA
* *
17427208 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGTTAAAGATAGCAGATCTTTC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* * *
17427273 CTTCCCGCATTGACAACGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * *
17427295 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTAGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
17427360 CTTCCTGCATTAACAGCAAAGC
66 CTTCCTGCATTAACAGCGAAGC
* *
17427382 AAATCGAAAATAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
17427447 CTTCCCGCATTGACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* *
17427469 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAACTGGTTAAAGATAGTAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
17427534 CTTCCTGCATTAACAGAGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* *
17427556 AGATCGAAAACAAAACATTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
17427621 CTTCCTGCATTAACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
17427643 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAG-TCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
17427707 CTTCCTGCATTAACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * * * *
17427729 AGATCAAAAACAAAGCCTTTCCACCATCGGTTGCAATAGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
17427794 CTTCTTGCATTGACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
*
17427816 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCATTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
17427881 CTTTCTGCATTAACAACGAAGC
66 CTTCCTGCATTAACAGCGAAGC
*
17427903 GGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
17427968 CTTCTTGCATTAACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * * * *
17427990 AGATCAAAAACAAAGCCTTGCCTCCATCAGTTGTAGTGGAGCTGGTTAAAGATAACAGGTCTT
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTT
17428053 ATCTCCATGA
Statistics
Matches: 701, Mismatches: 56, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
86 81 0.12
87 620 0.88
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCATTAACAGCGAAGC
Found at i:17428908 original size:13 final size:11
Alignment explanation
Indices: 17428877--17428919 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
17428867 CAGCAAAACG
*
17428877 AGAAGAAAAAT
1 AGAAAAAAAAT
17428888 AGAAAAAAAAT
1 AGAAAAAAAAT
*
17428899 AGCCAAAAAAA-
1 AG-AAAAAAAAT
17428910 AGAAAAAAAA
1 AGAAAAAAAA
17428920 GAACAGAGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 7 0.25
11 14 0.50
12 7 0.25
ACGTcount: A:0.79, C:0.05, G:0.12, T:0.05
Consensus pattern (11 bp):
AGAAAAAAAAT
Found at i:17430207 original size:28 final size:27
Alignment explanation
Indices: 17430153--17430214 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 27
17430143 CCGTATTATT
17430153 TAATTTATTTCAAATTTTCATTTATATA
1 TAATTTATTTCAAATTTT-ATTTATATA
* *
17430181 TTATTTATTTTAAA-TTTATTTTAATATA
1 TAATTTATTTCAAATTTTA-TTT-ATATA
17430209 TAATTT
1 TAATTT
17430215 CCTTTATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 1 0.03
27 6 0.21
28 22 0.76
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (27 bp):
TAATTTATTTCAAATTTTATTTATATA
Found at i:17441015 original size:22 final size:22
Alignment explanation
Indices: 17440974--17441062 Score: 78
Period size: 23 Copynumber: 4.0 Consensus size: 22
17440964 GAAGATGAAA
17440974 CTGGAAATTG--TTGCATTTGTT
1 CTGGAAATTGTTTTG-ATTTGTT
* *
17440995 -TTGATATTGTTCTTGATTTGTT
1 CTGGAAATTGTT-TTGATTTGTT
*
17441017 CTGGAAATTGTTTTGA-TAGTCT
1 CTGGAAATTGTTTTGATTTGT-T
17441039 GCTGGAAATTGTTCTTGATTTGTT
1 -CTGGAAATTGTT-TTGATTTGTT
17441063 AGTGAGTAGA
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
20 7 0.13
21 3 0.06
22 12 0.22
23 24 0.44
24 5 0.09
25 3 0.06
ACGTcount: A:0.18, C:0.08, G:0.22, T:0.52
Consensus pattern (22 bp):
CTGGAAATTGTTTTGATTTGTT
Found at i:17441047 original size:107 final size:107
Alignment explanation
Indices: 17440861--17441090 Score: 433
Period size: 107 Copynumber: 2.1 Consensus size: 107
17440851 GCTGTTTTCA
*
17440861 ATGAAACTAGAAATTGTTGCATTTGTTTTGATATTGTTCTTGATTTGTTCTGGAAATTGTTTTGA
1 ATGAAACTGGAAATTGTTGCATTTGTTTTGATATTGTTCTTGATTTGTTCTGGAAATTGTTTTGA
*
17440926 TAGTCTGTTAGAAATTGTTCTTGATTTGTTAGTGAGTAGAAG
66 TAGTCTGCTAGAAATTGTTCTTGATTTGTTAGTGAGTAGAAG
17440968 ATGAAACTGGAAATTGTTGCATTTGTTTTGATATTGTTCTTGATTTGTTCTGGAAATTGTTTTGA
1 ATGAAACTGGAAATTGTTGCATTTGTTTTGATATTGTTCTTGATTTGTTCTGGAAATTGTTTTGA
*
17441033 TAGTCTGCTGGAAATTGTTCTTGATTTGTTAGTGAGTAGAAG
66 TAGTCTGCTAGAAATTGTTCTTGATTTGTTAGTGAGTAGAAG
17441075 ATGAAACTGGAAATTG
1 ATGAAACTGGAAATTG
17441091 CAAGTATAGT
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
107 120 1.00
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.45
Consensus pattern (107 bp):
ATGAAACTGGAAATTGTTGCATTTGTTTTGATATTGTTCTTGATTTGTTCTGGAAATTGTTTTGA
TAGTCTGCTAGAAATTGTTCTTGATTTGTTAGTGAGTAGAAG
Found at i:17442669 original size:47 final size:47
Alignment explanation
Indices: 17442616--17442767 Score: 154
Period size: 47 Copynumber: 3.3 Consensus size: 47
17442606 TCATATAAGA
*
17442616 ATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATT
1 ATATTTAATATTAAGAATTTTATGAAATTATATATCATTATTAAATT
** *
17442663 ATATTTAATATTAATTA-TTT-T-AAATTATATA-AATTCATATAAGA--
1 ATATTTAATATTAAGAATTTTATGAAATTATATATCATT-AT-TAA-ATT
* ** * *
17442707 AAATTTGTTATCAAGAATTTTATGAAATTATATATCATTACTAAATT
1 ATATTTAATATTAAGAATTTTATGAAATTATATATCATTATTAAATT
17442754 ATATTTAATATTAA
1 ATATTTAATATTAA
17442768 TTATTTTAAA
Statistics
Matches: 80, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
43 3 0.04
44 23 0.29
45 8 0.10
46 8 0.10
47 35 0.44
48 3 0.04
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (47 bp):
ATATTTAATATTAAGAATTTTATGAAATTATATATCATTATTAAATT
Found at i:17442723 original size:91 final size:89
Alignment explanation
Indices: 17442602--17442881 Score: 393
Period size: 91 Copynumber: 3.2 Consensus size: 89
17442592 TGATTTTAGC
*
17442602 AAATTCATATAAGAATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
1 AAATTCATATAAGAAAATTT-TTA-TAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
17442667 TTAATATTAATTATTTTAAATTATAT
64 TTAATATTAATTATTTTAAATTATAT
*
17442693 AAATTCATATAAGAAAATTTGTTATCAAGAATTTTATGAAATTATATATCATTACTAAATTATAT
1 AAATTCATATAAGAAAATTT-TTAT-AAGAATTTTATGAAATTATATATCATTATTAAATTATAT
17442758 TTAATATTAATTATTTTAAATTATAT
64 TTAATATTAATTATTTTAAATTATAT
*
17442784 AAATTCATATAAGAAAATTTTTAT--GAA----AT--TATT-TAT-T-ATTATTAAATTATATTT
1 AAATTCATATAAGAAAATTTTTATAAGAATTTTATGAAATTATATATCATTATTAAATTATATTT
* * *
17442838 AATAATAATTATATTAAATTATAC
66 AATATTAATTATTTTAAATTATAT
17442862 AAATTCATATAAGAAAATTT
1 AAATTCATATAAGAAAATTT
17442882 ATTACTAATA
Statistics
Matches: 180, Mismatches: 8, Indels: 15
0.89 0.04 0.07
Matches are distributed among these distances:
78 57 0.32
79 1 0.01
80 3 0.02
81 3 0.02
83 2 0.01
87 3 0.02
90 5 0.03
91 106 0.59
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (89 bp):
AAATTCATATAAGAAAATTTTTATAAGAATTTTATGAAATTATATATCATTATTAAATTATATTT
AATATTAATTATTTTAAATTATAT
Found at i:17442727 original size:44 final size:43
Alignment explanation
Indices: 17442679--17442807 Score: 109
Period size: 47 Copynumber: 2.9 Consensus size: 43
17442669 AATATTAATT
17442679 ATTTTAAATTATATAAATTCATATAAGAAAATTTGTTATCAAGA
1 ATTTTAAATTATATAAATTCATATAAGAAAATTT-TTATCAAGA
* ** * * * **
17442723 ATTTTATGAAATTATATATCATT-ACTA-AATTATATTTAATATTAATT
1 A-TTT-T-AAATTATATA-AATTCA-TATAAGAAAATTT-TTATCAAGA
17442770 ATTTTAAATTATATAAATTCATATAAGAAAATTTTTAT
1 ATTTTAAATTATATAAATTCATATAAGAAAATTTTTAT
17442808 GAAATTATTT
Statistics
Matches: 64, Mismatches: 14, Indels: 15
0.69 0.15 0.16
Matches are distributed among these distances:
43 8 0.12
44 19 0.30
45 4 0.06
46 4 0.06
47 24 0.38
48 5 0.08
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (43 bp):
ATTTTAAATTATATAAATTCATATAAGAAAATTTTTATCAAGA
Found at i:17442830 original size:78 final size:78
Alignment explanation
Indices: 17442724--17442881 Score: 262
Period size: 78 Copynumber: 2.0 Consensus size: 78
17442714 TTATCAAGAA
* * *
17442724 TTTTATGAAATTATATATCATTACTAAATTATATTTAATATTAATTATTTTAAATTATATAAATT
1 TTTTATGAAATTATATATCATTACTAAATTATATTTAATAATAATTATATTAAATTATACAAATT
17442789 CATATAAGAAAAT
66 CATATAAGAAAAT
* * *
17442802 TTTTATGAAATTATTTATTATTATTAAATTATATTTAATAATAATTATATTAAATTATACAAATT
1 TTTTATGAAATTATATATCATTACTAAATTATATTTAATAATAATTATATTAAATTATACAAATT
17442867 CATATAAGAAAAT
66 CATATAAGAAAAT
17442880 TT
1 TT
17442882 ATTACTAATA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (78 bp):
TTTTATGAAATTATATATCATTACTAAATTATATTTAATAATAATTATATTAAATTATACAAATT
CATATAAGAAAAT
Found at i:17443047 original size:18 final size:17
Alignment explanation
Indices: 17443019--17443053 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17443009 AGTATTAAGA
*
17443019 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
17443036 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
17443054 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:17443308 original size:16 final size:16
Alignment explanation
Indices: 17443287--17443319 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
17443277 TTGATTTGTT
17443287 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
17443303 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
17443319 A
1 A
17443320 ATACAGCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.36, G:0.06, T:0.36
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:17465039 original size:11 final size:11
Alignment explanation
Indices: 17465016--17465044 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
17465006 TATGGTTTTG
17465016 TTCTTGA-TTA
1 TTCTTGATTTA
17465026 TTCTTGATTTA
1 TTCTTGATTTA
17465037 TTCTTGAT
1 TTCTTGAT
17465045 GATTTGACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.17, C:0.10, G:0.10, T:0.62
Consensus pattern (11 bp):
TTCTTGATTTA
Found at i:17465298 original size:28 final size:25
Alignment explanation
Indices: 17465246--17465298 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 25
17465236 GAATCTGTGA
*
17465246 GATTCTTAAAAAAATTTTGGGTTTT
1 GATTCTTAAAAAAATTTTGGATTTT
17465271 GATTCTTTAAATAAAATTTTAGGATTTT
1 GATTC-TTAAA-AAAATTTT-GGATTTT
17465299 ATAAATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 5 0.21
26 5 0.21
27 8 0.33
28 6 0.25
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (25 bp):
GATTCTTAAAAAAATTTTGGATTTT
Found at i:17469110 original size:26 final size:26
Alignment explanation
Indices: 17469074--17469130 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
17469064 TTGTCTACAT
17469074 TAACAACCCTGGTTTGGACCATTGGA
1 TAACAACCCTGGTTTGGACCATTGGA
17469100 TAACAACCCTGGTTTGGACCATTGGA
1 TAACAACCCTGGTTTGGACCATTGGA
17469126 TAACA
1 TAACA
17469131 TCTAAGAGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (26 bp):
TAACAACCCTGGTTTGGACCATTGGA
Found at i:17487609 original size:50 final size:50
Alignment explanation
Indices: 17487537--17487726 Score: 175
Period size: 50 Copynumber: 3.7 Consensus size: 50
17487527 CTTGTACTAT
* * **
17487537 CAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCAGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACATCTCATATCAGTGC
* * * * *
17487587 CCATGCCATGTCCCACACATGGTCTTACGA-GGGACCTCTCATCTCGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACATCTCATATCAGTGC
* * * *
17487637 CAAGGCCATGTCCTAGACATGTTCTTACATGAGACATCTCATAATCTCAATGATGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACATCTCAT-A--TC-A-G-TGC
* *
17487693 CAATGTCATGTCCTAGACATGGTCTTACATGGGA
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGA
17487727 TCTCTTTGCC
Statistics
Matches: 111, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
49 1 0.01
50 73 0.66
51 1 0.01
53 2 0.02
55 1 0.01
56 33 0.30
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (50 bp):
CAATGCCATGTCCCAGACATGGTCTTACATGGGACATCTCATATCAGTGC
Found at i:17492230 original size:233 final size:233
Alignment explanation
Indices: 17491823--17492288 Score: 851
Period size: 233 Copynumber: 2.0 Consensus size: 233
17491813 AAATGCAAAA
* * *
17491823 CTTTAGGGGTATTGAAAAATAAAATTTCATAGGTTCAAAAATATCATGGCATAAGATAAAAAATA
1 CTTTAGGGGTATTGAAAAATAAAATTTCATAGGTTCAAAAAAATCATGGCATAACATAAAAAAGA
*
17491888 TTTGGTATTGATAAATTATTTAAAATAATTAATTAGATCAAGAATTGAATCAAATTGGAGATAAT
66 TTTGGTATTGATAAATTATTTAAAATAATTAATTAGATCAAGAATTGAATCAAACTGGAGATAAT
*
17491953 CAAGAAAAAACAAAAATTATCGATTAGTCCCTGAAGATTCAATTTTTTTACTATTTTTCCAGATA
131 CAAGAAAAAACAAAAATTATCGATTAGTCCCTGAAGATTCAATTTGTTTACTATTTTTCCAGATA
17492018 AGTTCATATGGTATATATATGTGTTTAAATAATTATGT
196 AGTTCATATGGTATATATATGTGTTTAAATAATTATGT
*
17492056 CTTTAGGGGTATTGAAAAATAAAATTTCATAGGTTCAAAAAAATCATGGCATAACATAAAAAAGG
1 CTTTAGGGGTATTGAAAAATAAAATTTCATAGGTTCAAAAAAATCATGGCATAACATAAAAAAGA
17492121 TTTGGTATTGATAAATTATTTAAAATAATTAATTAGATCAAGAATTGAATCAAACTGGAGATAAT
66 TTTGGTATTGATAAATTATTTAAAATAATTAATTAGATCAAGAATTGAATCAAACTGGAGATAAT
* * *
17492186 CAAGGAAAAATAAAAATTATCGATTAGTCCCTGAAGATTCAATTTGTTTACTGTTTTTCCAGATA
131 CAAGAAAAAACAAAAATTATCGATTAGTCCCTGAAGATTCAATTTGTTTACTATTTTTCCAGATA
17492251 AGTTCATATGGTATATATATGTGTTTAAATAATTATGT
196 AGTTCATATGGTATATATATGTGTTTAAATAATTATGT
17492289 GTTTGATTTG
Statistics
Matches: 224, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
233 224 1.00
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (233 bp):
CTTTAGGGGTATTGAAAAATAAAATTTCATAGGTTCAAAAAAATCATGGCATAACATAAAAAAGA
TTTGGTATTGATAAATTATTTAAAATAATTAATTAGATCAAGAATTGAATCAAACTGGAGATAAT
CAAGAAAAAACAAAAATTATCGATTAGTCCCTGAAGATTCAATTTGTTTACTATTTTTCCAGATA
AGTTCATATGGTATATATATGTGTTTAAATAATTATGT
Found at i:17493683 original size:11 final size:11
Alignment explanation
Indices: 17493667--17493691 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17493657 CAACCCCCTA
17493667 GTTATATTAAG
1 GTTATATTAAG
17493678 GTTATATTAAG
1 GTTATATTAAG
17493689 GTT
1 GTT
17493692 GGAAATGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (11 bp):
GTTATATTAAG
Found at i:17500398 original size:17 final size:18
Alignment explanation
Indices: 17500361--17500404 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
17500351 ATAAATCTGT
*
17500361 ATAAATTATATATTTAAA
1 ATAAAATATATATTTAAA
* *
17500379 ATAACATATA-ATTTATA
1 ATAAAATATATATTTAAA
17500396 ATAAAATAT
1 ATAAAATAT
17500405 GTGGTTCAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
ATAAAATATATATTTAAA
Found at i:17503036 original size:26 final size:25
Alignment explanation
Indices: 17503007--17503055 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
17502997 TATGAGAAAG
17503007 CTTACACCCAAAATTTAGTAGTAGCC
1 CTTACACCCAAAATTTAG-AGTAGCC
*
17503033 CTTACACTCAAAATTTAGAGTAG
1 CTTACACCCAAAATTTAGAGTAG
17503056 GGGTTTAGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (25 bp):
CTTACACCCAAAATTTAGAGTAGCC
Found at i:17511118 original size:15 final size:16
Alignment explanation
Indices: 17511092--17511121 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17511082 TTTGGTTGAG
17511092 AAAATAATTTAATTAA
1 AAAATAATTTAATTAA
17511108 AAAATAA-TTAATTA
1 AAAATAATTTAATTA
17511122 TATTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAAATAATTTAATTAA
Found at i:17512192 original size:3 final size:3
Alignment explanation
Indices: 17512184--17512242 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
17512174 AACCTCTCAT
17512184 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
17512232 GAA GAA GAA GA
1 GAA GAA GAA GA
17512243 TGTTTTTTTA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:17512887 original size:27 final size:27
Alignment explanation
Indices: 17512857--17512911 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
17512847 TAGACAATCC
17512857 TCGAGCAATGTTATCTTTAAAGGAACT
1 TCGAGCAATGTTATCTTTAAAGGAACT
**
17512884 TCGAGTGATGTTATCTTTAAAGGAACT
1 TCGAGCAATGTTATCTTTAAAGGAACT
17512911 T
1 T
17512912 TGCATGTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (27 bp):
TCGAGCAATGTTATCTTTAAAGGAACT
Found at i:17516421 original size:40 final size:40
Alignment explanation
Indices: 17516363--17516438 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
17516353 TTCAAATTAA
*
17516363 GTTAGAATGATGGTCAAATGTTACACGATTATTAGTTCGT
1 GTTAGAATGATGGCCAAATGTTACACGATTATTAGTTCGT
17516403 GTTAGAATGATGGCCAAATGTTACACGATTATTAGT
1 GTTAGAATGATGGCCAAATGTTACACGATTATTAGT
17516439 ACATGTGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.36
Consensus pattern (40 bp):
GTTAGAATGATGGCCAAATGTTACACGATTATTAGTTCGT
Found at i:17524879 original size:17 final size:17
Alignment explanation
Indices: 17524836--17524879 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
17524826 AAGTATCGCG
17524836 TGGCAGATAGTATTGCC
1 TGGCAGATAGTATTGCC
* *
17524853 TGGAAAATAGTATTGCC
1 TGGCAGATAGTATTGCC
*
17524870 TGGCGGATAG
1 TGGCAGATAG
17524880 AATTACTTGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (17 bp):
TGGCAGATAGTATTGCC
Found at i:17524922 original size:17 final size:17
Alignment explanation
Indices: 17524876--17524913 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
17524866 TGCCTGGCGG
* *
17524876 ATAGAATTACTTGACGA
1 ATAGAATTACCTAACGA
17524893 ATAGAATTACCTAACGA
1 ATAGAATTACCTAACGA
17524910 ATAG
1 ATAG
17524914 GATTGCCTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (17 bp):
ATAGAATTACCTAACGA
Found at i:17526687 original size:18 final size:18
Alignment explanation
Indices: 17526664--17526701 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
17526654 GTAAGTTTCC
17526664 AAAATTGGAAATAGAAAT
1 AAAATTGGAAATAGAAAT
*
17526682 AAAATTGGAAATGGAAAT
1 AAAATTGGAAATAGAAAT
17526700 AA
1 AA
17526702 TAAAGAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.21
Consensus pattern (18 bp):
AAAATTGGAAATAGAAAT
Found at i:17526717 original size:24 final size:24
Alignment explanation
Indices: 17526664--17526718 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
17526654 GTAAGTTTCC
*
17526664 AAAATTGGAAATAGAAATAAAATTG
1 AAAA-TGGAAATAGAAAGAAAATTG
* *
17526689 GAAATGGAAATAATAAAGAAAA-TG
1 AAAATGGAAAT-AGAAAGAAAATTG
17526713 AAAATG
1 AAAATG
17526719 ATCCATTTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.62, C:0.00, G:0.18, T:0.20
Consensus pattern (24 bp):
AAAATGGAAATAGAAAGAAAATTG
Found at i:17526912 original size:26 final size:26
Alignment explanation
Indices: 17526864--17526925 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 26
17526854 ACATATTTTC
** **
17526864 TCAAAATTTTATTAGGGGCAAAATTG
1 TCAAAATTTTACAAGGGGCAAAATCA
* *
17526890 TCAAAATTTTACAATGGGTAAAATCA
1 TCAAAATTTTACAAGGGGCAAAATCA
17526916 TCAAAATTTT
1 TCAAAATTTT
17526926 GTTGAGGGTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (26 bp):
TCAAAATTTTACAAGGGGCAAAATCA
Found at i:17527266 original size:22 final size:20
Alignment explanation
Indices: 17527230--17527287 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 20
17527220 GGCCCGGCTC
17527230 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA--AAAA
17527252 ATTTATTTTAAAAATTAAAAA
1 ATTTATTTTAAAAA-TAAAAA
*
17527273 A-GTATTTTAAAAATA
1 ATTTATTTTAAAAATA
17527288 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 2 0.06
20 11 0.33
21 5 0.15
22 7 0.21
23 8 0.24
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTTATTTTAAAAATAAAAA
Found at i:17527289 original size:11 final size:11
Alignment explanation
Indices: 17527269--17527411 Score: 97
Period size: 11 Copynumber: 14.4 Consensus size: 11
17527259 TTAAAAATTA
17527269 AAAAAGTATTTT
1 AAAAA-TATTTT
17527281 AAAAATATTTT
1 AAAAATATTTT
17527292 --AAA-A--TT
1 AAAAATATTTT
17527298 -AAAATATTTT
1 AAAAATATTTT
17527308 AAAAATATTTT
1 AAAAATATTTT
17527319 AAAAATATTTT
1 AAAAATATTTT
17527330 --AAA-A--TT
1 AAAAATATTTT
*
17527336 AAAAATA--AT
1 AAAAATATTTT
17527345 AAAAAGTATTTT
1 AAAAA-TATTTT
17527357 AAAAATATTTT
1 AAAAATATTTT
*
17527368 --AAA-A-TTA
1 AAAAATATTTT
* *
17527375 AAAAATA-ATA
1 AAAAATATTTT
17527385 AAAAAGTATTTT
1 AAAAA-TATTTT
17527397 AAAAATATTTT
1 AAAAATATTTT
17527408 AAAA
1 AAAA
17527412 TTAAAAAAAA
Statistics
Matches: 109, Mismatches: 6, Indels: 33
0.74 0.04 0.22
Matches are distributed among these distances:
6 4 0.04
7 5 0.05
8 7 0.06
9 19 0.17
10 12 0.11
11 45 0.41
12 17 0.16
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:17527330 original size:49 final size:50
Alignment explanation
Indices: 17527298--17527411 Score: 135
Period size: 40 Copynumber: 2.5 Consensus size: 50
17527288 TTTTAAAATT
17527298 AAAA-TATTTTAAAAATATTTTAAAAA-TATTTTAAAATTAAAAATAATA
1 AAAAGTATTTTAAAAATATTTTAAAAAGTATTTTAAAATTAAAAATAATA
*
17527346 AAAAGTATTTTAAAAATATTTT--AAA--A--TTAAAA--AATAAT-A-A
1 AAAAGTATTTTAAAAATATTTTAAAAAGTATTTTAAAATTAAAAATAATA
17527386 AAAAGTATTTTAAAAATATTTTAAAA
1 AAAAGTATTTTAAAAATATTTTAAAA
17527412 TTAAAAAAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 12
0.83 0.01 0.16
Matches are distributed among these distances:
40 23 0.37
41 1 0.02
42 7 0.11
44 6 0.10
46 1 0.02
47 3 0.05
48 4 0.06
49 17 0.27
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (50 bp):
AAAAGTATTTTAAAAATATTTTAAAAAGTATTTTAAAATTAAAAATAATA
Found at i:17527400 original size:40 final size:40
Alignment explanation
Indices: 17527267--17527429 Score: 255
Period size: 38 Copynumber: 4.2 Consensus size: 40
17527257 TTTTAAAAAT
* *
17527267 TAAAAAAGTATTTTAAAAATATTTTAAAATTAAAATAT-T
1 TAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAA
*
17527306 TTAAAAA-TATTTTAAAAATATTTTAAAATT-AAAAATAA
1 TAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAA
17527344 T-AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAA
1 TAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAA
17527383 TAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAA-AA
1 TAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAA
17527422 TTAAAAAA
1 -TAAAAAA
17527430 TAAATATATT
Statistics
Matches: 116, Mismatches: 3, Indels: 9
0.91 0.02 0.07
Matches are distributed among these distances:
37 10 0.09
38 47 0.41
39 17 0.15
40 42 0.36
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (40 bp):
TAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAA
Found at i:17530590 original size:20 final size:20
Alignment explanation
Indices: 17530541--17530606 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
17530531 GCTACGATGT
** *
17530541 CTCTGTTTGCACTTCTGTGC
1 CTCTGTTTGCACAACAGTGC
**
17530561 CTCTAATTGCACAAGCA-TGC
1 CTCTGTTTGCACAA-CAGTGC
*
17530581 CTCTGTTTGCACTACAGTGC
1 CTCTGTTTGCACAACAGTGC
17530601 CTCTGT
1 CTCTGT
17530607 ATAGAGTTAC
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.06
20 33 0.92
21 1 0.03
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.36
Consensus pattern (20 bp):
CTCTGTTTGCACAACAGTGC
Found at i:17533845 original size:22 final size:22
Alignment explanation
Indices: 17533815--17533860 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
17533805 AATGGTAAAC
*
17533815 TAGCTTTGTTA-TGGATTTGTAG
1 TAGCATTGTTACTGGATTTG-AG
*
17533837 TAGCATTGTTACTGTATTTGAG
1 TAGCATTGTTACTGGATTTGAG
17533859 TA
1 TA
17533861 TTCTCAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.22, C:0.07, G:0.24, T:0.48
Consensus pattern (22 bp):
TAGCATTGTTACTGGATTTGAG
Found at i:17541778 original size:21 final size:21
Alignment explanation
Indices: 17541748--17541797 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
17541738 TAAAATTTAA
*
17541748 AAAAATTAATTTTTTTAAATAT
1 AAAAA-TAATTTTTTAAAATAT
17541770 AAAAATAA--TTTTAAAATAT
1 AAAAATAATTTTTTAAAATAT
17541789 AAAAA-AATT
1 AAAAATAATT
17541798 CTAAAATTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 2 0.08
19 15 0.60
21 3 0.12
22 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAATAATTTTTTAAAATAT
Found at i:17541786 original size:19 final size:18
Alignment explanation
Indices: 17541759--17541804 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
17541749 AAAATTAATT
*
17541759 TTTTTAAATATAAAAATAA
1 TTTTAAAATATAAAAA-AA
17541778 TTTTAAAATATAAAAAAA
1 TTTTAAAATATAAAAAAA
*
17541796 TTCTAAAAT
1 TTTTAAAAT
17541805 TCAATGTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
TTTTAAAATATAAAAAAA
Found at i:17541803 original size:18 final size:19
Alignment explanation
Indices: 17541764--17541804 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
17541754 TAATTTTTTT
*
17541764 AAATATAAAAATAATTTTA
1 AAATATAAAAATAATTCTA
17541783 AAATATAAAAA-AATTCTA
1 AAATATAAAAATAATTCTA
17541801 AAAT
1 AAAT
17541805 TCAATGTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATATAAAAATAATTCTA
Found at i:17542221 original size:7 final size:8
Alignment explanation
Indices: 17542201--17542230 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
17542191 AATTTTGAAT
17542201 TTTTTCATA
1 TTTTTC-TA
17542210 TTTTTCTA
1 TTTTTCTA
17542218 TTTTTCTA
1 TTTTTCTA
17542226 TTTTT
1 TTTTT
17542231 GAATTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 15 0.71
9 6 0.29
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTCTA
Found at i:17542236 original size:16 final size:17
Alignment explanation
Indices: 17542193--17542237 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
17542183 TAACATTGAA
17542193 TTTTGAATTTTTTCATAT
1 TTTTGAA-TTTTTCATAT
**
17542211 TTTTCTATTTTTC-TAT
1 TTTTGAATTTTTCATAT
17542227 TTTTGAATTTT
1 TTTTGAATTTT
17542238 AAAGAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 12 0.52
17 6 0.26
18 5 0.22
ACGTcount: A:0.18, C:0.07, G:0.04, T:0.71
Consensus pattern (17 bp):
TTTTGAATTTTTCATAT
Found at i:17545172 original size:12 final size:12
Alignment explanation
Indices: 17545143--17545177 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
17545133 GAATTAGTCC
*
17545143 TATTATTATTAT
1 TATTACTATTAT
17545155 TATTACTATTAT
1 TATTACTATTAT
17545167 TATTACCTATT
1 TATTA-CTATT
17545178 TATTTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTACTATTAT
Found at i:17565610 original size:21 final size:21
Alignment explanation
Indices: 17565577--17565633 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
17565567 TAAAAACATA
17565577 AAAAT-TAAAAAAATTAATTTT
1 AAAATATAAAAAAA-TAATTTT
* *
17565598 TAAATATATAAAAATAATTTT
1 AAAATATAAAAAAATAATTTT
17565619 AAAATATAAAAAAAT
1 AAAATATAAAAAAAT
17565634 TCTAAAATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 24 0.77
22 7 0.23
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAATATAAAAAAATAATTTT
Found at i:17566065 original size:7 final size:8
Alignment explanation
Indices: 17566036--17566066 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
17566026 GAATTTTGAA
17566036 ATTTTTCAT
1 ATTTTTC-T
17566045 ATTTTTCT
1 ATTTTTCT
17566053 ATTTTTCT
1 ATTTTTCT
17566061 ATTTTT
1 ATTTTT
17566067 GAATTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 15 0.68
9 7 0.32
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (8 bp):
ATTTTTCT
Found at i:17566072 original size:16 final size:17
Alignment explanation
Indices: 17566029--17566074 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
17566019 TAACATTGAA
17566029 TTTTGAAATTTTTCATAT
1 TTTTG-AATTTTTCATAT
**
17566047 TTTTCTATTTTTC-TAT
1 TTTTGAATTTTTCATAT
17566063 TTTTGAATTTTT
1 TTTTGAATTTTT
17566075 AAAGAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 13 0.54
17 7 0.29
18 4 0.17
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.70
Consensus pattern (17 bp):
TTTTGAATTTTTCATAT
Found at i:17567628 original size:27 final size:26
Alignment explanation
Indices: 17567563--17567630 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
17567553 TAAATCTACC
17567563 CCAAACAGCCCCATTA-AACCCAAATG
1 CCAAACAG-CCCATTACAACCCAAATG
17567589 CCAAAC--CCCATTACAAGCCCAAAT-
1 CCAAACAGCCCATTACAA-CCCAAATG
17567613 CCAAACAAGCCCATTACA
1 CCAAAC-AGCCCATTACA
17567631 GCAAGGCCCA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
23 7 0.19
24 8 0.22
25 7 0.19
26 6 0.16
27 9 0.24
ACGTcount: A:0.43, C:0.40, G:0.06, T:0.12
Consensus pattern (26 bp):
CCAAACAGCCCATTACAACCCAAATG
Found at i:17568738 original size:12 final size:12
Alignment explanation
Indices: 17568709--17568743 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
17568699 GAATTAGTCC
*
17568709 TATTATTATTAT
1 TATTACTATTAT
17568721 TATTACTATTAT
1 TATTACTATTAT
17568733 TATTACCTATT
1 TATTA-CTATT
17568744 TATTTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTACTATTAT
Found at i:17580154 original size:1 final size:1
Alignment explanation
Indices: 17580138--17580200 Score: 72
Period size: 1 Copynumber: 63.0 Consensus size: 1
17580128 TTTGCTTCCT
* * * * * *
17580138 AAAAAACAAAACAAAAAACAAAAAAAACAAAAAAAAAAAAAAAAAAACAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
17580201 CTTTGGAGAG
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:17580163 original size:20 final size:19
Alignment explanation
Indices: 17580138--17580200 Score: 85
Period size: 18 Copynumber: 3.3 Consensus size: 19
17580128 TTTGCTTCCT
17580138 AAAAAACAAAACAAAAAACAA
1 AAAAAACAAAA-AAAAAAC-A
17580159 AAAAAACAAAAAAAAAA-A
1 AAAAAACAAAAAAAAAACA
17580177 AAAAAA-AACAAAAAAAACA
1 AAAAAACAA-AAAAAAAACA
17580196 AAAAA
1 AAAAA
17580201 CTTTGGAGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
17 2 0.05
18 15 0.38
19 6 0.15
20 6 0.15
21 11 0.28
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAACAAAAAAAAAACA
Found at i:17580166 original size:16 final size:16
Alignment explanation
Indices: 17580140--17580201 Score: 94
Period size: 14 Copynumber: 4.0 Consensus size: 16
17580130 TGCTTCCTAA
17580140 AAAACAAAACAAAAAAC
1 AAAA-AAAACAAAAAAC
17580157 AAAAAAAAC-AAAAA-
1 AAAAAAAACAAAAAAC
17580171 AAAAAAAA-AAAAAAC
1 AAAAAAAACAAAAAAC
17580186 AAAAAAAACAAAAAAC
1 AAAAAAAACAAAAAAC
17580202 TTTGGAGAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
14 13 0.31
15 13 0.31
16 12 0.29
17 4 0.10
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAACAAAAAAC
Found at i:17580170 original size:29 final size:29
Alignment explanation
Indices: 17580138--17580200 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
17580128 TTTGCTTCCT
* *
17580138 AAAAAACAAAACAAAAAACAAAAAAAACA
1 AAAAAAAAAAAAAAAAAACAAAAAAAACA
17580167 AAAAAAAAAAAAAAAAAACAAAAAAAACA
1 AAAAAAAAAAAAAAAAAACAAAAAAAACA
17580196 AAAAA
1 AAAAA
17580201 CTTTGGAGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (29 bp):
AAAAAAAAAAAAAAAAAACAAAAAAAACA
Found at i:17581584 original size:44 final size:44
Alignment explanation
Indices: 17581530--17581957 Score: 213
Period size: 44 Copynumber: 9.8 Consensus size: 44
17581520 AGAATTTCAG
* *
17581530 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTGGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTGGTA
* * * * *
17581574 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCAAGG--
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-GAAGC-TGGTA
* * * * *
17581618 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCA-CTAGG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCT-GGTA
* ** * *
17581660 -TCTTAT-TCCCCTGAGATTACAGTGGAACAGACCGAAGAAT-TTCAA
1 ATCTTATCT-CCCTGAGATTACAGTGGAGCAGATTGAAG-CTGGT--A
* * *
17581705 ATCTTATCTCCCTGAGATTACCGCGGAGCAGATTGAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTGGTA
* * * ***
17581749 ATCCTATCTCTCTGAGATTACAGTGGAGCGGATTAGAATAAAGG--
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-GAA-GCTGGTA
* * * * * * *
17581793 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCACCAGG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTGGTA
* * * * * *
17581835 -TCCTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAAT-TTCA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CTGGT-A
* *
17581879 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTGGTA
* * * *
17581924 ATCCTATCTCCCTGAGATTATAATGGAGCGGATT
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATT
17581958 AAAATAAAGG
Statistics
Matches: 285, Mismatches: 73, Indels: 52
0.70 0.18 0.13
Matches are distributed among these distances:
40 1 0.00
41 51 0.18
42 8 0.03
43 6 0.02
44 142 0.50
45 9 0.03
46 67 0.24
47 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTGGTA
Found at i:17581808 original size:175 final size:175
Alignment explanation
Indices: 17581517--17582002 Score: 819
Period size: 175 Copynumber: 2.8 Consensus size: 175
17581507 CGAAGTAGAT
* *
17581517 CGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTGGTAATCCTATC
1 CGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATC
**
17581582 TCCCTGAGATTACAGTGGAGCGGATTAAAACCAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
66 TCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
* *
17581647 AGATCGCACTAGGTCTTATTCCCCTGAGATTACAGTGGAACAGAC
131 AGATCGCACCAGGTCCTATTCCCCTGAGATTACAGTGGAACAGAC
* *
17581692 CGAAGAATTTCAAATCTTATCTCCCTGAGATTACCGCGGAGCAGATTGAAGCTAGTAATCCTATC
1 CGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATC
* *
17581757 TCTCTGAGATTACAGTGGAGCGGATTAGAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
66 TCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
*
17581822 AGATCGCACCAGGTCCTATTTCCCTGAGATTACAGTGGAACAGAC
131 AGATCGCACCAGGTCCTATTCCCCTGAGATTACAGTGGAACAGAC
*
17581867 TGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATC
1 CGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATC
* * * * *
17581932 TCCCTGAGATTATAATGGAGCGGATTAAAATAAAGGATCTTATTTCTTTGAGGTTACAGTAGAGT
66 TCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
17581997 AGATCG
131 AGATCG
17582003 TTTCAGATCT
Statistics
Matches: 290, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
175 290 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (175 bp):
CGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATC
TCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
AGATCGCACCAGGTCCTATTCCCCTGAGATTACAGTGGAACAGAC
Found at i:17583682 original size:12 final size:12
Alignment explanation
Indices: 17583653--17583687 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
17583643 GAATTAGTCC
*
17583653 TATTATTATTAT
1 TATTACTATTAT
17583665 TATTACTATTAT
1 TATTACTATTAT
17583677 TATTACCTATT
1 TATTA-CTATT
17583688 TATTTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTACTATTAT
Found at i:17588222 original size:132 final size:132
Alignment explanation
Indices: 17587977--17588608 Score: 1012
Period size: 132 Copynumber: 4.8 Consensus size: 132
17587967 TCCATTCCAC
* * *
17587977 TTGGGAAGATAAGATTCACCATCTTCGATCTGTTCTACTACTGCTTAGGGAGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
* * * * *
17588042 TATTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAACGACTTAAATCTGCTTCTCCACTG
66 TCTTCAACCTACTCCACTACTACTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
17588107 TA
131 TA
* *
17588109 TTGGAAAGATAAGATTCACCATATTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
* * *
17588174 TCTTCGACCTATTCCACTACTATTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
66 TCTTCAACCTACTCCACTACTACTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
17588239 TA
131 TA
* * *
17588241 TTGGGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGTTTAGGGTGACAGAATCTACAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
* * * ** * *
17588306 TCTTCGACCTATTCCACTATTGTTTAGGGTGATAAGACTAATGGCTTAAATCTGCTTCTCCACTA
66 TCTTCAACCTACTCCACTACTACTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
17588371 TA
131 TA
17588373 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
* *
17588438 TCTTCAACCTACTCCACTACTACTTAGGGTGATAGGACAAATGGCTTAAATTTGCTTCTCCACTG
66 TCTTCAACCTACTCCACTACTACTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
17588503 TA
131 TA
* * *
17588505 TTGAGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAAAATTTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
17588570 TCTTCAACCTACTCCACTACTACTTAGGGTGATAGGACT
66 TCTTCAACCTACTCCACTACTACTTAGGGTGATAGGACT
17588609 GCTTAGGGAG
Statistics
Matches: 462, Mismatches: 38, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 462 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (132 bp):
TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
TCTTCAACCTACTCCACTACTACTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
TA
Found at i:17588615 original size:18 final size:18
Alignment explanation
Indices: 17588592--17588626 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17588582 TCCACTACTA
*
17588592 CTTAGGGTGATAGGACTG
1 CTTAGGGAGATAGGACTG
17588610 CTTAGGGAGATAGGACT
1 CTTAGGGAGATAGGACT
17588627 AGATGCGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.11, G:0.37, T:0.26
Consensus pattern (18 bp):
CTTAGGGAGATAGGACTG
Found at i:17588758 original size:50 final size:50
Alignment explanation
Indices: 17588700--17589423 Score: 272
Period size: 50 Copynumber: 14.7 Consensus size: 50
17588690 TGCAATGTTG
* *
17588700 GGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTATTCTATTACACCGCCT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCTATTGCACCGCCT
* ** *
17588750 GGGAAGTAAGATTCGCCGTTGT-GACTTCAATCT-TTTTAATTGCAATG-TT
1 GGGAAGTAAGATTCGCCGTTGTAG-CTTCAATCTATTCT-ATTGCACCGCCT
* * *
17588799 GGTGAAAG-AAGATTTGCCGTTGTAGCTTCAATCTATTCCACTGCACCGCCT
1 GG-G-AAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCTATTGCACCGCCT
* * * *
17588850 GGAAAGTAAGATTTGCTGTTGTAGCTTCAATCT-TTTTAATTG--CCG---
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCT-ATTGCACCGCCT
* * * * * * *
17588895 GGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACG-CT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCTATTGCACCGCCT
* * * * **** *
17588944 AAGAAAGTAAGA-TCTGCTGTTGTAGCTTCAATCT-TTTTAATTGCAATATCA
1 -GGGAAGTAAGATTC-GCCGTTGTAGCTTCAATCTATTCT-ATTGCACCGCCT
* * * * * * *
17588995 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGTAACG-CT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCTATTGCACCGCCT
* * * * ** * * ** * *
17589044 AAGAAAGTAAAATCCGTTGTTGTAGCTTCAATCT-TTTTAATTACAATGTCA
1 -GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCT-ATTGCACCGCCT
* * * **** *
17589095 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCT-TTTTAATTGCAATATCA
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCT-ATTGCACCGCCT
* * * * * * *
17589145 GGGAAGTAAGATCCGCTGTTATAGCTTCAATCTGTTCCACTGCAACG-CT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCTATTGCACCGCCT
* * * * * ** * *
17589194 AAGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT-TTTTAATTGCAATGTCA
1 -GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCT-ATTGCACCGCCT
* * * * * * *
17589245 GGGAAGTAAGATCCGCTGCTGTAGCTTCAATCTGTTCCACTGCAACG-CT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCTATTGCACCGCCT
* * * * * * * *
17589294 AAGAAAGTAAGATCCACTGTTGTAGCTTCAATC--TT-T-TT-AACTGCCA
1 -GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCTATTGCACCGCCT
* * * * * * *
17589340 GGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCTATTGCACCGCCT
* * *
17589390 GGAAAGGTAAGATTCGTCGTTGTGGCTTCAATCT
1 GGGAA-GTAAGATTCGCCGTTGTAGCTTCAATCT
17589424 TTTAATTGAA
Statistics
Matches: 528, Mismatches: 110, Indels: 71
0.74 0.16 0.10
Matches are distributed among these distances:
45 62 0.12
46 4 0.01
47 4 0.01
48 5 0.01
49 23 0.04
50 388 0.73
51 42 0.08
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (50 bp):
GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCTATTGCACCGCCT
Found at i:17588850 original size:100 final size:99
Alignment explanation
Indices: 17588677--17589327 Score: 532
Period size: 100 Copynumber: 6.6 Consensus size: 99
17588667 CTGCCATCTC
* * * * * * * * *
17588677 CAATCTGTTTAACTGCAATGTTGGGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTATTCTATTA
1 CAATCTTTTTAATTGCAATG-TAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTATTCCACTG
* * * *
17588742 CACCGCCT-GGGAAGTAAGATTCGCCGTTGT-GACTT
65 CAACG-CTAAGAAAGTAAGATTCGCTGTTGTAG-CTT
* ** *
17588777 CAATCTTTTTAATTGCAATGTTGGTGAAAG-AAGATTTGCCGTTGTAGCTTCAATCTATTCCACT
1 CAATCTTTTTAATTGCAATGTAGG-G-AAGTAAGATCCGCTGTTGTAGCTTCAATCTATTCCACT
* * *
17588841 GCACCGCCT-GGAAAGTAAGATTTGCTGTTGTAGCTT
64 GCAACG-CTAAGAAAGTAAGATTCGCTGTTGTAGCTT
* * *
17588877 CAATCTTTTTAATTGC--CG--GGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGC
1 CAATCTTTTTAATTGCAATGTAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTATTCCACTGC
17588938 AACGCTAAGAAAGTAAGA-TCTGCTGTTGTAGCTT
66 AACGCTAAGAAAGTAAGATTC-GCTGTTGTAGCTT
* *
17588972 CAATCTTTTTAATTGCAATATCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTG
1 CAATCTTTTTAATTGCAATGT-AGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTATTCCACTG
* * * *
17589037 TAACGCTAAGAAAGTAAAATCCGTTGTTGTAGCTT
65 CAACGCTAAGAAAGTAAGATTCGCTGTTGTAGCTT
* * ** *
17589072 CAATCTTTTTAATTACAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTG
1 CAATCTTTTTAATTGCAATGT-AGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTATTCCACTG
** * * * *
17589137 CAA-TATCAGGGAAGTAAGATCCGCTGTTATAGCTT
65 CAACGCT-AAGAAAGTAAGATTCGCTGTTGTAGCTT
* ** * * * * * ** *
17589172 CAATCTGTTCCACTGCAACGCTAAGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTG
1 CAATCTTTTTAATTGCAATG-TAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTATTCCACTG
* * * * *
17589237 CAATG-TCAGGGAAGTAAGATCCGCTGCTGTAGCTT
65 CAACGCT-AAGAAAGTAAGATTCGCTGTTGTAGCTT
* ** * * * * *
17589272 CAATCTGTTCCACTGCAACGCTAAGAAAGTAAGATCCACTGTTGTAGCTTCAATCT
1 CAATCTTTTTAATTGCAATG-TAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCT
17589328 TTTTAACTGC
Statistics
Matches: 484, Mismatches: 52, Indels: 30
0.86 0.09 0.05
Matches are distributed among these distances:
94 6 0.01
95 75 0.15
96 2 0.00
98 1 0.00
99 4 0.01
100 390 0.81
101 6 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (99 bp):
CAATCTTTTTAATTGCAATGTAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTATTCCACTGC
AACGCTAAGAAAGTAAGATTCGCTGTTGTAGCTT
Found at i:17589120 original size:150 final size:150
Alignment explanation
Indices: 17588948--17589327 Score: 600
Period size: 150 Copynumber: 2.5 Consensus size: 150
17588938 AACGCTAAGA
*
17588948 AAGTAAGATCTGCTGTTGTAGCTTCAATCTTTTTAATTGCAATATCAGGGAAGTAAGATCCGCTG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATATCAGGGAAGTAAGATCCGCTG
* *
17589013 TTGTAGCTTCAATCTGTTCCACTGTAACGCTAAGAAAGTAAAATCCGTTGTTGTAGCTTCAATCT
66 TTGTAGCTTCAATCTGTTCCACTGCAACGCTAAGAAAGTAAAATCCGCTGTTGTAGCTTCAATCT
17589078 TTTTAATTACAATGTCAGGG
131 TTTTAATTACAATGTCAGGG
17589098 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATATCAGGGAAGTAAGATCCGCTG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATATCAGGGAAGTAAGATCCGCTG
* *
17589163 TTATAGCTTCAATCTGTTCCACTGCAACGCTAAGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT
66 TTGTAGCTTCAATCTGTTCCACTGCAACGCTAAGAAAGTAAAATCCGCTGTTGTAGCTTCAATCT
*
17589228 TTTTAATTGCAATGTCAGGG
131 TTTTAATTACAATGTCAGGG
* * ** * ** * * *
17589248 AAGTAAGATCCGCTGCTGTAGCTTCAATCTGTTCCACTGCAA-CGCTAAGAAAGTAAGATCCACT
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATATC-AGGGAAGTAAGATCCGCT
17589312 GTTGTAGCTTCAATCT
65 GTTGTAGCTTCAATCT
17589328 TTTTAACTGC
Statistics
Matches: 212, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
149 1 0.00
150 211 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (150 bp):
AAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATATCAGGGAAGTAAGATCCGCTG
TTGTAGCTTCAATCTGTTCCACTGCAACGCTAAGAAAGTAAAATCCGCTGTTGTAGCTTCAATCT
TTTTAATTACAATGTCAGGG
Found at i:17589328 original size:100 final size:100
Alignment explanation
Indices: 17588902--17589431 Score: 510
Period size: 100 Copynumber: 5.3 Consensus size: 100
17588892 CCGGGGAAGC
* ** * * * * *
17588902 AAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACG-CTAAGAAAGTAAGATCTGCTGTTG
1 AAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTC-AGGGAAGTAAGATCCGCTGTTG
* ** * ** * *
17588966 TAGCTTCAATCTTTTTAATTGCAA-TATCAGGGAAGT
65 TAGCTTCAATCTGTTCCACTGCAACGCT-AAGAAAGT
* ** * * * * * * *
17589002 AAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGTAACG-CTAAGAAAGTAAAATCCGTTGTTG
1 AAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTC-AGGGAAGTAAGATCCGCTGTTG
* ** * * * * *
17589066 TAGCTTCAATCTTTTTAATTACAATG-TCAGGGAAGT
65 TAGCTTCAATCTGTTCCACTGCAACGCT-AAGAAAGT
* *
17589102 AAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATATCAGGGAAGTAAGATCCGCTGTTAT
1 AAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGT
17589167 AGCTTCAATCTGTTCCACTGCAACGCTAAGAAAGT
66 AGCTTCAATCTGTTCCACTGCAACGCTAAGAAAGT
*
17589202 AAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGCTGT
1 AAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGT
17589267 AGCTTCAATCTGTTCCACTGCAACGCTAAGAAAGT
66 AGCTTCAATCTGTTCCACTGCAACGCTAAGAAAGT
* * *
17589302 AAGATCCACTGTTGTAGCTTCAATCTTTTTAA---C--TGCCAGGGAAGCAAGATCCGCTGTTGT
1 AAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGT
*
17589362 AGCTTCAATCTGTTCCACTGC-ACTGCCT-GGAAAGGT
66 AGCTTCAATCTGTTCCACTGCAAC-G-CTAAGAAA-GT
* *
17589398 AAGATTCG-TCGTTGTGGCTTCAATC-TTTTAATTG
1 AAGATCCGCT-GTTGTAGCTTCAATCTTTTTAATTG
17589432 AAGACTATAG
Statistics
Matches: 383, Mismatches: 37, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
94 2 0.01
95 57 0.15
96 24 0.06
97 1 0.00
100 297 0.78
101 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (100 bp):
AAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGT
AGCTTCAATCTGTTCCACTGCAACGCTAAGAAAGT
Found at i:17589337 original size:150 final size:147
Alignment explanation
Indices: 17588753--17589372 Score: 585
Period size: 150 Copynumber: 4.2 Consensus size: 147
17588743 ACCGCCTGGG
* * * **
17588753 AAGTAAGATTCGCCGTTGT-GACTTCAATCTTTTTAATTGCAATGT-TGGTGAAAG-AAGATTTG
1 AAGTAAGATCCGCTGTTGTAG-CTTCAATCTTTTTAATTGCAATGTCAGG-G-AAGTAAGATCCG
* * * * * * **
17588815 CCGTTGTAGCTTCAATCTATTCCACTGCACCG-CCTGGAAAGTAAGATTTGCTGTTGTAGCTTCA
63 CTGTTGTAGCTTCAATCTTTTCAACTGCA-AGATCAGGAAAGTAAGATCCGCTGTTGTAGCTTCA
* * * * *
17588879 ATCTTTTTAATTGCCG--GGG
127 ATCTGTTCAACTGCCGCAAGA
* * ** * * * * *
17588898 AAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACG-CTAAGAAAGTAAGATCTGCT
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTC-AGGGAAGTAAGATCCGCT
* * * *
17588962 GTTGTAGCTTCAATCTTTTTAATTGCAATATCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATC
65 GTTGTAGCTTCAATCTTTTCAACTGCAAGATCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATC
* *
17589027 TGTTCCACTGTAACGCTAAGA
130 TGTTCAACTG--CCGC-AAGA
* * *
17589048 AAGTAAAATCCGTTGTTGTAGCTTCAATCTTTTTAATTACAATGTCAGGGAAGTAAGATCCGCTG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTG
* * * * *
17589113 TTGTAGCTTCAATCTTTTTAATTGCAATATCAGGGAAGTAAGATCCGCTGTTATAGCTTCAATCT
66 TTGTAGCTTCAATCTTTTCAACTGCAAGATCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT
*
17589178 GTTCCACTGCAACGCTAAGA
131 GTTCAACTGC--CGC-AAGA
17589198 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTG
* * * * * *
17589263 CTGTAGCTTCAATCTGTTCCACTGCAACGCT-AAGAAAGTAAGATCCACTGTTGTAGCTTCAATC
66 TTGTAGCTTCAATCTTTTCAACTGCAA-GATCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATC
* * * *
17589327 TTTTTAACTG-C-CAGGG
130 TGTTCAACTGCCGCAAGA
*
17589343 AAGCAAGATCCGCTGTTGTAGCTTCAATCT
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCT
17589373 GTTCCACTGC
Statistics
Matches: 396, Mismatches: 65, Indels: 28
0.81 0.13 0.06
Matches are distributed among these distances:
144 3 0.01
145 132 0.33
146 3 0.01
147 3 0.01
150 253 0.64
151 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (147 bp):
AAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTG
TTGTAGCTTCAATCTTTTCAACTGCAAGATCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT
GTTCAACTGCCGCAAGA
Found at i:17590527 original size:53 final size:53
Alignment explanation
Indices: 17590464--17590569 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
17590454 CATTCTGAGT
*
17590464 TTGACATGTGTTTAGGAGATCTTCAGGACTTTGTCGATGCTCCAAGATGTCGC
1 TTGACATGTGTTTAGGAGATCTTCAGGACTTTGTCGATACTCCAAGATGTCGC
*
17590517 TTGACATGTGTTTAGGAGATCTTCGGGACTTTGTCGATACTCCAAGATGTCGC
1 TTGACATGTGTTTAGGAGATCTTCAGGACTTTGTCGATACTCCAAGATGTCGC
17590570 CTACCTTTTC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (53 bp):
TTGACATGTGTTTAGGAGATCTTCAGGACTTTGTCGATACTCCAAGATGTCGC
Found at i:17591986 original size:6 final size:6
Alignment explanation
Indices: 17591971--17592012 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
17591961 TTGACCTCTC
*
17591971 CTTTTA CTTTTT CTTTTT CTTTTT CTTTTT -TTTTT CTATTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CT-TTTT
17592013 GACTTTGATT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
5 5 0.15
6 24 0.73
7 4 0.12
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (6 bp):
CTTTTT
Found at i:17592024 original size:23 final size:23
Alignment explanation
Indices: 17591998--17592059 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
17591988 TCTTTTTCTT
**
17591998 TTTTTTTTCTATTTTGACTTTGA
1 TTTTTTTGATATTTTGACTTTGA
* *
17592021 TTTTTTTGATTTTTTGATTTTGA
1 TTTTTTTGATATTTTGACTTTGA
* *
17592044 TTTATTT-ATTTTTTGA
1 TTTTTTTGATATTTTGA
17592060 GTATGAACTC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 9 0.26
23 25 0.74
ACGTcount: A:0.15, C:0.03, G:0.10, T:0.73
Consensus pattern (23 bp):
TTTTTTTGATATTTTGACTTTGA
Found at i:17592041 original size:14 final size:14
Alignment explanation
Indices: 17592007--17592055 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
17591997 TTTTTTTTTC
17592007 TATTTTGACTTTGATT
1 TATTTTGA-TTT-ATT
17592023 T-TTTTGATTT-TT
1 TATTTTGATTTATT
17592035 TGATTTTGATTTATT
1 T-ATTTTGATTTATT
17592050 TATTTT
1 TATTTT
17592056 TTGAGTATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 3 0.10
14 17 0.57
15 9 0.30
16 1 0.03
ACGTcount: A:0.16, C:0.02, G:0.10, T:0.71
Consensus pattern (14 bp):
TATTTTGATTTATT
Found at i:17600843 original size:46 final size:46
Alignment explanation
Indices: 17600776--17600864 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
17600766 AGGCACACGG
* *
17600776 GTTGGGCTTTCCCACACGGGTTGGACACACGACTATGAGCCAACGA
1 GTTGGGCTTTCCCACAAGGGTTGGACACACGACCATGAGCCAACGA
* *
17600822 GTTGGGCTTTCCCAGAAGGGTTGGACACACGGCCATGAGCCAA
1 GTTGGGCTTTCCCACAAGGGTTGGACACACGACCATGAGCCAA
17600865 ACTGTGCAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.24, C:0.27, G:0.30, T:0.19
Consensus pattern (46 bp):
GTTGGGCTTTCCCACAAGGGTTGGACACACGACCATGAGCCAACGA
Found at i:17612923 original size:30 final size:33
Alignment explanation
Indices: 17612887--17612962 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 33
17612877 AAATTAATAT
17612887 ATTTTA-TT-AAA-ATATCATTA-AAAAAATAAA
1 ATTTTATTTAAAAGATATCATTACAAAAAA-AAA
17612917 ATTTTATTTAAAAGTATATCATTACAAAAAAAAA
1 ATTTTATTTAAAAG-ATATCATTACAAAAAAAAA
*
17612951 ACTTTAATTTAA
1 A-TTTTATTTAA
17612963 CAACTTAAGC
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
30 6 0.15
31 2 0.05
32 3 0.08
34 13 0.33
35 15 0.38
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.38
Consensus pattern (33 bp):
ATTTTATTTAAAAGATATCATTACAAAAAAAAA
Found at i:17617385 original size:37 final size:37
Alignment explanation
Indices: 17617327--17617411 Score: 134
Period size: 37 Copynumber: 2.3 Consensus size: 37
17617317 TGGGCATACG
*
17617327 CAAGGTAAGATAATCTACTGGACTTGTCCTCATGTTT
1 CAAGCTAAGATAATCTACTGGACTTGTCCTCATGTTT
* * *
17617364 GAAGCTAAGATAGTCTGCTGGACTTGTCCTCATGTTT
1 CAAGCTAAGATAATCTACTGGACTTGTCCTCATGTTT
17617401 CAAGCTAAGAT
1 CAAGCTAAGAT
17617412 CATCCGTTGG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (37 bp):
CAAGCTAAGATAATCTACTGGACTTGTCCTCATGTTT
Found at i:17617428 original size:37 final size:37
Alignment explanation
Indices: 17617344--17617428 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 37
17617334 AGATAATCTA
* *
17617344 CTGGACTTGTCCTCATGTTTGAAGCTAAGATAGTCTG
1 CTGGACTTGTCCTCATGTTTCAAGCTAAGATAGTCCG
17617381 CTGGACTTGTCCTCATGTTTCAAGCTAAGATCA-TCCG
1 CTGGACTTGTCCTCATGTTTCAAGCTAAGAT-AGTCCG
* *
17617418 TTGGAATTGTC
1 CTGGACTTGTC
17617429 TCCAAGTTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
37 42 0.98
38 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.35
Consensus pattern (37 bp):
CTGGACTTGTCCTCATGTTTCAAGCTAAGATAGTCCG
Found at i:17617595 original size:42 final size:42
Alignment explanation
Indices: 17617544--17617629 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 42
17617534 TATCTATAAA
* *
17617544 TCTGGATATATGAAT-TCGTACTTATGAATCCGCATATGTGAT
1 TCTGCATATATGAATCT-ATACTTATGAATCCGCATATGTGAT
**
17617586 TCTGCATATATGAATCTATACTTATGAATCTTCATATGTGAT
1 TCTGCATATATGAATCTATACTTATGAATCCGCATATGTGAT
17617628 TC
1 TC
17617630 ATATGTGATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 38 0.97
43 1 0.03
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (42 bp):
TCTGCATATATGAATCTATACTTATGAATCCGCATATGTGAT
Found at i:17617632 original size:11 final size:11
Alignment explanation
Indices: 17617616--17617640 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17617606 CTTATGAATC
17617616 TTCATATGTGA
1 TTCATATGTGA
17617627 TTCATATGTGA
1 TTCATATGTGA
17617638 TTC
1 TTC
17617641 TGTATCTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.48
Consensus pattern (11 bp):
TTCATATGTGA
Found at i:17622045 original size:8 final size:8
Alignment explanation
Indices: 17622032--17622056 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17622022 CATTAGTCAT
17622032 TCAATTCA
1 TCAATTCA
17622040 TCAATTCA
1 TCAATTCA
17622048 TCAATTCA
1 TCAATTCA
17622056 T
1 T
17622057 AAACACTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (8 bp):
TCAATTCA
Found at i:17622100 original size:21 final size:20
Alignment explanation
Indices: 17622076--17622126 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 20
17622066 ATTTATAACA
*
17622076 TATTCAATTCTCATCACTTGC
1 TATTCAAATCTCAT-ACTTGC
17622097 TATTTCAAATCTCATACTTGC
1 TA-TTCAAATCTCATACTTGC
*
17622118 TATACAAAT
1 TATTCAAAT
17622127 AGCTTTTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 6 0.22
21 10 0.37
22 11 0.41
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.41
Consensus pattern (20 bp):
TATTCAAATCTCATACTTGC
Found at i:17622103 original size:22 final size:21
Alignment explanation
Indices: 17622078--17622120 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
17622068 TTATAACATA
*
17622078 TTCAATTCTCATCACTTGCTAT
1 TTCAAATCTCAT-ACTTGCTAT
17622100 TTCAAATCTCATACTTGCTAT
1 TTCAAATCTCATACTTGCTAT
17622121 ACAAATAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.44
Consensus pattern (21 bp):
TTCAAATCTCATACTTGCTAT
Found at i:17622661 original size:12 final size:12
Alignment explanation
Indices: 17622644--17622674 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
17622634 AATATCAATT
17622644 ACTTACCTCAAC
1 ACTTACCTCAAC
17622656 ACTTACCTCAAC
1 ACTTACCTCAAC
17622668 ACTTACC
1 ACTTACC
17622675 ATATACATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.42, G:0.00, T:0.26
Consensus pattern (12 bp):
ACTTACCTCAAC
Found at i:17623372 original size:5 final size:5
Alignment explanation
Indices: 17623364--17623409 Score: 85
Period size: 5 Copynumber: 9.4 Consensus size: 5
17623354 TTCTTTTAGT
17623364 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA T-ATA TA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TA
17623410 CTTAACATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.10
5 36 0.90
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:17623458 original size:38 final size:37
Alignment explanation
Indices: 17623392--17623471 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 37
17623382 TATAATATAA
17623392 TATAATATAATATATATACTTAACATTTAAGTTTTAT
1 TATAATATAATATATATACTTAACATTTAAGTTTTAT
* * *
17623429 TATAATATTATATTATATATTTTAA-ATTTAATTTTTAT
1 TATAATATAATA-TATATA-CTTAACATTTAAGTTTTAT
*
17623467 AATAA
1 TATAA
17623472 AATACACTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 11 0.30
38 22 0.59
39 4 0.11
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.53
Consensus pattern (37 bp):
TATAATATAATATATATACTTAACATTTAAGTTTTAT
Found at i:17624670 original size:40 final size:40
Alignment explanation
Indices: 17624624--17624703 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
17624614 ATAGGTGCCA
** *
17624624 ATTACTTCGGTTTAGCCGATGAGACATTGGGTGTCAAACT
1 ATTACTTCGAATTAGCCGATGAGACATTGGGTGCCAAACT
* * *
17624664 ATTACTTCGAATTATCTGATGAGGCATTGGGTGCCAAACT
1 ATTACTTCGAATTAGCCGATGAGACATTGGGTGCCAAACT
17624704 GGTGAGTTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (40 bp):
ATTACTTCGAATTAGCCGATGAGACATTGGGTGCCAAACT
Found at i:17625093 original size:18 final size:17
Alignment explanation
Indices: 17625072--17625112 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
17625062 AATTACAAAA
*
17625072 AAAATCAAAATAATTTTT
1 AAAATCAAAAT-ATTTAT
17625090 AAAATTCAAAATATTTAT
1 AAAA-TCAAAATATTTAT
17625108 AAAAT
1 AAAAT
17625113 ATATAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 13 0.62
19 7 0.33
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAATCAAAATATTTAT
Found at i:17625093 original size:19 final size:18
Alignment explanation
Indices: 17625071--17625111 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
17625061 AAATTACAAA
*
17625071 AAAAATCAAAATAATTTTT
1 AAAAATCAAAAT-ATTTAT
*
17625090 AAAATTCAAAATATTTAT
1 AAAAATCAAAATATTTAT
17625108 AAAA
1 AAAA
17625112 TATATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAATCAAAATATTTAT
Found at i:17625147 original size:10 final size:10
Alignment explanation
Indices: 17625132--17625189 Score: 62
Period size: 11 Copynumber: 5.5 Consensus size: 10
17625122 TTATATTTTA
17625132 AAAAAATTAT
1 AAAAAATTAT
*
17625142 AAAAAATTCT
1 AAAAAATTAT
*
17625152 ACAAAAATTCT
1 A-AAAAATTAT
17625163 AAAAAATATAT
1 AAAAAAT-TAT
*
17625174 AAAGAAATTTT
1 AAA-AAATTAT
17625185 AAAAA
1 AAAAA
17625190 TTAAAAATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
10 18 0.43
11 20 0.48
12 4 0.10
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:17627236 original size:41 final size:40
Alignment explanation
Indices: 17627177--17627323 Score: 204
Period size: 41 Copynumber: 3.6 Consensus size: 40
17627167 TTGAATGAAG
17627177 GGGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAAAAA
1 GGGTTGCTAAGTGCAGATTCCCCGAATCACTGAT-AAAAAA
*
17627218 GTGTTGCTAAGTGCAGATTCCCCGAATCACTGATAAAAAAA
1 GGGTTGCTAAGTGCAGATTCCCCGAATCACTGAT-AAAAAA
** * * *
17627259 GGGTTGCTAAGTATAGATTCCCCGAAACTCTAATAAAAAA
1 GGGTTGCTAAGTGCAGATTCCCCGAATCACTGATAAAAAA
* *
17627299 GGGGTGCTAAGTGTAGATTCCCCGA
1 GGGTTGCTAAGTGCAGATTCCCCGA
17627324 GGGGTTGCTA
Statistics
Matches: 96, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 29 0.30
41 67 0.70
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (40 bp):
GGGTTGCTAAGTGCAGATTCCCCGAATCACTGATAAAAAA
Found at i:17627334 original size:26 final size:25
Alignment explanation
Indices: 17627298--17627349 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 25
17627288 CTAATAAAAA
17627298 AGGGGTGCTAAGTGTAGATTCCCCG
1 AGGGGTGCTAAGTGTAGATTCCCCG
*
17627323 AGGGGTTGCTAAGTGTTGATTCCCCG
1 AGGGG-TGCTAAGTGTAGATTCCCCG
17627349 A
1 A
17627350 ATTATTGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.19, C:0.19, G:0.35, T:0.27
Consensus pattern (25 bp):
AGGGGTGCTAAGTGTAGATTCCCCG
Found at i:17632755 original size:22 final size:22
Alignment explanation
Indices: 17632713--17632758 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
17632703 TAGAAAAGTG
*
17632713 TAGAGAAAATCTAAAGAAAACC
1 TAGAGAAAATCTAAACAAAACC
*
17632735 TAGAGAAAA-CTAAACCTAAACC
1 TAGAGAAAATCTAAA-CAAAACC
17632757 TA
1 TA
17632759 AAGCTAAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.57, C:0.17, G:0.11, T:0.15
Consensus pattern (22 bp):
TAGAGAAAATCTAAACAAAACC
Found at i:17644103 original size:37 final size:36
Alignment explanation
Indices: 17644047--17644168 Score: 118
Period size: 37 Copynumber: 3.3 Consensus size: 36
17644037 TGGACATACG
* * * * *
17644047 CAAGGTAAGACAGTTCGCTGGACTTTTTCTTATGTTT
1 CAAGCTAAGATAG-TCGCTGGACTTATCCTAATGTTT
*
17644084 CAAGCTAAGATAGTCCGCTGGACTTGTCCTAATGTTT
1 CAAGCTAAGATAGT-CGCTGGACTTATCCTAATGTTT
* * * * *
17644121 CAAACAAAGACAAATCGTTGGACTTATCCTAATGTTT
1 CAAGCTAAGA-TAGTCGCTGGACTTATCCTAATGTTT
17644158 CAAGCTAAGAT
1 CAAGCTAAGAT
17644169 CGTCTATTGG
Statistics
Matches: 69, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
36 1 0.01
37 66 0.96
38 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (36 bp):
CAAGCTAAGATAGTCGCTGGACTTATCCTAATGTTT
Found at i:17644179 original size:37 final size:36
Alignment explanation
Indices: 17644078--17644182 Score: 104
Period size: 37 Copynumber: 2.8 Consensus size: 36
17644068 ACTTTTTCTT
* * *
17644078 ATGTTTCAAGCTAAGATAGTCCGCTGGACTTGTCCTA
1 ATGTTTCAAGCTAAGATCGT-CGTTGGACTTATCCTA
* * *
17644115 ATGTTTCAAACAAAGA-CAAATCGTTGGACTTATCCTA
1 ATGTTTCAAGCTAAGATC--GTCGTTGGACTTATCCTA
*
17644152 ATGTTTCAAGCTAAGATCGTCTATTGGACTT
1 ATGTTTCAAGCTAAGATCGTC-GTTGGACTT
17644183 GTCTCAAAGT
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
36 2 0.04
37 50 0.93
38 2 0.04
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (36 bp):
ATGTTTCAAGCTAAGATCGTCGTTGGACTTATCCTA
Found at i:17645723 original size:36 final size:35
Alignment explanation
Indices: 17645683--17645774 Score: 123
Period size: 36 Copynumber: 2.6 Consensus size: 35
17645673 AAATTGTTGG
17645683 TTTATCCAACTAGCGTTGGGCGTAAAACATTGTCGA
1 TTTATCCAACTA-CGTTGGGCGTAAAACATTGTCGA
* *
17645719 TTTATCCAACTACCGCTT-GGCGTAAAACATTGTTGG
1 TTTATCCAACTA-CG-TTGGGCGTAAAACATTGTCGA
*
17645755 TTTATCCAACTAAGTTGGGC
1 TTTATCCAACTACGTTGGGC
17645775 ACACATTGGA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
34 2 0.04
35 4 0.08
36 42 0.84
37 2 0.04
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (35 bp):
TTTATCCAACTACGTTGGGCGTAAAACATTGTCGA
Found at i:17645992 original size:24 final size:24
Alignment explanation
Indices: 17645952--17645998 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
17645942 GGACGATATA
*
17645952 CAAAAAAGATATCAATGAGAATGT
1 CAAAAAAGATATCAATGAAAATGT
*
17645976 CAAAAAGGATAGT-AATGAAAATG
1 CAAAAAAGATA-TCAATGAAAATG
17645999 CCAATGTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.55, C:0.06, G:0.19, T:0.19
Consensus pattern (24 bp):
CAAAAAAGATATCAATGAAAATGT
Found at i:17647674 original size:14 final size:14
Alignment explanation
Indices: 17647657--17647708 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
17647647 AACCTGTACT
17647657 TATGAATCCGCATA
1 TATGAATCCGCATA
* * *
17647671 TATGATTCTGCATC
1 TATGAATCCGCATA
* * *
17647685 TTTGAGTCCACATA
1 TATGAATCCGCATA
17647699 TATGAATCCG
1 TATGAATCCG
17647709 TACTTATGAG
Statistics
Matches: 27, Mismatches: 11, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (14 bp):
TATGAATCCGCATA
Found at i:17647718 original size:28 final size:28
Alignment explanation
Indices: 17647652--17647720 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
17647642 TTATTAACCT
* * * *
17647652 GTACTTATGAATCCGCATATATGATTCT
1 GTACTTATGAGTCCACATATATGAATCC
*
17647680 GCATCTT-TGAGTCCACATATATGAATCC
1 GTA-CTTATGAGTCCACATATATGAATCC
17647708 GTACTTATGAGTC
1 GTACTTATGAGTC
17647721 TGTATATATG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
27 3 0.09
28 27 0.82
29 3 0.09
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (28 bp):
GTACTTATGAGTCCACATATATGAATCC
Found at i:17647775 original size:26 final size:26
Alignment explanation
Indices: 17647726--17647775 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
17647716 GAGTCTGTAT
* *
17647726 ATATGATTCTGCATCTCTGGATCCAC
1 ATATGATTCTGCATCTATGAATCCAC
* *
17647752 ATATGATTTTGTATCTATGAATCC
1 ATATGATTCTGCATCTATGAATCC
17647776 GCTTATGTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (26 bp):
ATATGATTCTGCATCTATGAATCCAC
Found at i:17652091 original size:121 final size:121
Alignment explanation
Indices: 17651877--17652106 Score: 451
Period size: 121 Copynumber: 1.9 Consensus size: 121
17651867 TCACTGGTAT
*
17651877 CTTGCTCTGTAATACAAGCATTTGGTGCATTCTTATATTTCTTATTTAGCTTCACGTAGTCCTTT
1 CTTGCTCTGTAATACAAGCATTTGGTGCATCCTTATATTTCTTATTTAGCTTCACGTAGTCCTTT
17651942 CAATGACCTTTCCCATGACAAAAGGCATATTCATCTTTTCCAAATTTGACTTTTGA
66 CAATGACCTTTCCCATGACAAAAGGCATATTCATCTTTTCCAAATTTGACTTTTGA
17651998 CTTGCTCTGTAATACAAGCATTTGGTGCATCCTTATATTTCTTATTTAGCTTCACGTAGTCCTTT
1 CTTGCTCTGTAATACAAGCATTTGGTGCATCCTTATATTTCTTATTTAGCTTCACGTAGTCCTTT
17652063 CAATGACCTTTCCCATGACAAAAGGCATATTCATCTTTTCCAAA
66 CAATGACCTTTCCCATGACAAAAGGCATATTCATCTTTTCCAAA
17652107 CTTGGTCGAA
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
121 108 1.00
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (121 bp):
CTTGCTCTGTAATACAAGCATTTGGTGCATCCTTATATTTCTTATTTAGCTTCACGTAGTCCTTT
CAATGACCTTTCCCATGACAAAAGGCATATTCATCTTTTCCAAATTTGACTTTTGA
Found at i:17653642 original size:113 final size:113
Alignment explanation
Indices: 17653444--17653668 Score: 326
Period size: 113 Copynumber: 2.0 Consensus size: 113
17653434 TGCACTAGGT
* ** * *
17653444 AAGTTCATAGGAAATAGAGGTGGGTCATAGATACTCTTAAATACCAAGTCTTTCTTAGCCAGAAT
1 AAGTTCATAGGAAAGAGAGGTGCATCATACATACTCTTAAATACCAAGTCTTTCCTAGCCAGAAT
* *
17653509 TTTTCCTAAACACGCACTTTCACACAACTACACCTATATCTAGTAATC
66 TTTTCATAAACACGCACTTTCACACAACTACACCTATATCCAGTAATC
* * * *
17653557 AAGTTCCTAGGAAAGAGTGGTGCATCATACATACTTTTAAATACCAAGTCTTTCCTAGCTAGAAC
1 AAGTTCATAGGAAAGAGAGGTGCATCATACATACTCTTAAATACCAAGTCTTTCCTAGCCAGAA-
*
17653622 TTTTT-ATAAACATGCACTTTCACACAACTACACCTATATCCAGTAAT
65 TTTTTCATAAACACGCACTTTCACACAACTACACCTATATCCAGTAAT
17653669 TAAGGAACCA
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
113 94 0.95
114 5 0.05
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (113 bp):
AAGTTCATAGGAAAGAGAGGTGCATCATACATACTCTTAAATACCAAGTCTTTCCTAGCCAGAAT
TTTTCATAAACACGCACTTTCACACAACTACACCTATATCCAGTAATC
Found at i:17654673 original size:12 final size:12
Alignment explanation
Indices: 17654658--17654699 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
17654648 CTCTGGGCCT
17654658 TCGCTTGGGTCC
1 TCGCTTGGGTCC
*
17654670 TCGCTTGGTTCC
1 TCGCTTGGGTCC
*
17654682 TCACTTGGGTCC
1 TCGCTTGGGTCC
17654694 TCGCTT
1 TCGCTT
17654700 TCATTTGGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.02, C:0.33, G:0.26, T:0.38
Consensus pattern (12 bp):
TCGCTTGGGTCC
Found at i:17656465 original size:18 final size:18
Alignment explanation
Indices: 17656442--17656483 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
17656432 GCAAAGCTAC
*
17656442 GAGCTCAACTCAAGT-TGT
1 GAGCTCAA-ACAAGTATGT
17656460 GAGCTCAAACAAGTATGT
1 GAGCTCAAACAAGTATGT
17656478 GAGCTC
1 GAGCTC
17656484 TACACTTGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (18 bp):
GAGCTCAAACAAGTATGT
Found at i:17656533 original size:35 final size:35
Alignment explanation
Indices: 17656487--17656557 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
17656477 TGAGCTCTAC
* * *
17656487 ACTTGCGAGCTCACCTAAAGATGCGAACTCATCAA
1 ACTTGCAAGCTCAACTAAAGATGCGAACACATCAA
* * *
17656522 ACTTGCAAGCTCAACTCAAGTTGCGAGCACATCAA
1 ACTTGCAAGCTCAACTAAAGATGCGAACACATCAA
17656557 A
1 A
17656558 GTGTGAGCTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (35 bp):
ACTTGCAAGCTCAACTAAAGATGCGAACACATCAA
Found at i:17661040 original size:17 final size:17
Alignment explanation
Indices: 17661002--17661052 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
17660992 ACTCTATCCT
*
17661002 TGCGAGCTCACCTAAAGA
1 TGCGAGCTCATC-AAAGA
*
17661020 TGCGAGCTCATCAAAGC
1 TGCGAGCTCATCAAAGA
*
17661037 TGCGAGCACATCAAAG
1 TGCGAGCTCATCAAAG
17661053 TATGAGCTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 19 0.63
18 11 0.37
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.16
Consensus pattern (17 bp):
TGCGAGCTCATCAAAGA
Found at i:17666617 original size:21 final size:21
Alignment explanation
Indices: 17666573--17666619 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
17666563 ATATAGGGTT
*
17666573 TAAAA-TAAAAAAAACATAAT
1 TAAAATTAAAAAAAACATAAA
17666593 TAAAATTAAAACAAAACA-AAA
1 TAAAATTAAAA-AAAACATAAA
17666614 TAAAAT
1 TAAAAT
17666620 CAATGGGGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 5 0.21
21 13 0.54
22 6 0.25
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.19
Consensus pattern (21 bp):
TAAAATTAAAAAAAACATAAA
Found at i:17667805 original size:36 final size:35
Alignment explanation
Indices: 17667766--17667834 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 35
17667756 TTAATTAATT
* *
17667766 TTTTTAATTTTAAAAATTCA-AAAAAGTATAAAATA
1 TTTTTAAATTTAAAAA-TCATAAAAAGTACAAAATA
17667801 TTTTTAAATTTAAAAATCATTAAAAAGTACAAAA
1 TTTTTAAATTTAAAAATCA-TAAAAAGTACAAAA
17667835 AAATATTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
34 3 0.10
35 15 0.50
36 12 0.40
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (35 bp):
TTTTTAAATTTAAAAATCATAAAAAGTACAAAATA
Done.